Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D07
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 56457815
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1765025 characters in sequence are not A, C, G, or T
File 50 of 189
Found at i:14350536 original size:27 final size:26
Alignment explanation
Indices: 14350483--14350537 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
14350473 AATTTAATTT
* * *
14350483 AATTTAAAATATAATAATTTATGAAA
1 AATTTAAAATATAAAAATTAATAAAA
14350509 AATTTAAAATATATAAAATTAATAAAA
1 AATTTAAAATATA-AAAATTAATAAAA
14350536 AA
1 AA
14350538 AATATATGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
26 13 0.52
27 12 0.48
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.35
Consensus pattern (26 bp):
AATTTAAAATATAAAAATTAATAAAA
Found at i:14361386 original size:112 final size:112
Alignment explanation
Indices: 14361257--14361458 Score: 314
Period size: 112 Copynumber: 1.8 Consensus size: 112
14361247 ATAAAATATT
* * * ** *
14361257 TTAGGAATGTGTTGGGCTGAGTAACCAGGGTGGGGTGCTTGACTGTCATCTCTCTTTGCGTTAAA
1 TTAGGAATATGTCGGGCTGAGTAACCAGGGTGGGGTGCTTGACTATCATCTCTCTTCACGTCAAA
14361322 AGGTTCAATATATTCTTAAGAAAAAAAACATATATAAATATAATAAA
66 AGGTTCAATATATTCTTAAGAAAAAAAACATATATAAATATAATAAA
* * *
14361369 TTAGGAATATGTCGGGCTGAGTAACCCGGGTGGGGTGTTTGGCTATCATCTCTCTTCACGTCAAA
1 TTAGGAATATGTCGGGCTGAGTAACCAGGGTGGGGTGCTTGACTATCATCTCTCTTCACGTCAAA
*
14361434 AGGTTCAATATATTCTTAAGCAAAA
66 AGGTTCAATATATTCTTAAGAAAAA
14361459 GAAGAAGAAG
Statistics
Matches: 80, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
112 80 1.00
ACGTcount: A:0.31, C:0.14, G:0.23, T:0.32
Consensus pattern (112 bp):
TTAGGAATATGTCGGGCTGAGTAACCAGGGTGGGGTGCTTGACTATCATCTCTCTTCACGTCAAA
AGGTTCAATATATTCTTAAGAAAAAAAACATATATAAATATAATAAA
Found at i:14369551 original size:28 final size:28
Alignment explanation
Indices: 14369516--14369598 Score: 112
Period size: 28 Copynumber: 3.0 Consensus size: 28
14369506 AATATCGGTA
*
14369516 AGTGTGGGCCTTAGCCCATTACAGTAAC
1 AGTGTGGGCCTTAGCCCAATACAGTAAC
* *
14369544 AGTGTGGGCCTTAGCCCAGTACAGTGAC
1 AGTGTGGGCCTTAGCCCAATACAGTAAC
* * *
14369572 AATATGGGCCTTAGCCCAATGCAGTAA
1 AGTGTGGGCCTTAGCCCAATACAGTAA
14369599 ACAGAATAAT
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 48 1.00
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.23
Consensus pattern (28 bp):
AGTGTGGGCCTTAGCCCAATACAGTAAC
Found at i:14369969 original size:27 final size:27
Alignment explanation
Indices: 14369939--14370241 Score: 389
Period size: 27 Copynumber: 11.2 Consensus size: 27
14369929 GGTATAAAAG
* *
14369939 TCATTTTTCCCTTCGAGGGCATTTCGA
1 TCATTTTACCCTTCGAGGGTATTTCGA
* * *
14369966 TCATTTTACCCGTCGGGGGTATTTCAA
1 TCATTTTACCCTTCGAGGGTATTTCGA
14369993 TCATTTTACCCTTCGAGGGTATTTCGA
1 TCATTTTACCCTTCGAGGGTATTTCGA
* *
14370020 TCATTTTACCCATCGAGGGTATTTCGG
1 TCATTTTACCCTTCGAGGGTATTTCGA
* *
14370047 TCATTTTACCCTTCGGGGGTATTTTGA
1 TCATTTTACCCTTCGAGGGTATTTCGA
*
14370074 TCATTTTACCCTTCGGGGGTATTTC-A
1 TCATTTTACCCTTCGAGGGTATTTCGA
*
14370100 GTCATTTTACCCTTTGAGGGTATTTC-A
1 -TCATTTTACCCTTCGAGGGTATTTCGA
*
14370127 GTCATTTTACCCTTC-AGGGGTATTTCGG
1 -TCATTTTACCCTTCGA-GGGTATTTCGA
*
14370155 TCATTTTACCTTTCGAGGGTATTTC-A
1 TCATTTTACCCTTCGAGGGTATTTCGA
*
14370181 GTTATTTTACCCTTCGAGGGTATTTCGA
1 -TCATTTTACCCTTCGAGGGTATTTCGA
* * *
14370209 TCATTTTATCCTTCGAAGGTATTTCGG
1 TCATTTTACCCTTCGAGGGTATTTCGA
14370236 TCATTT
1 TCATTT
14370242 GCCCATGAAT
Statistics
Matches: 243, Mismatches: 27, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
26 2 0.01
27 239 0.98
28 2 0.01
ACGTcount: A:0.17, C:0.21, G:0.20, T:0.42
Consensus pattern (27 bp):
TCATTTTACCCTTCGAGGGTATTTCGA
Found at i:14376203 original size:15 final size:16
Alignment explanation
Indices: 14376174--14376216 Score: 70
Period size: 15 Copynumber: 2.8 Consensus size: 16
14376164 TTAAAAATTT
14376174 ATTTTAAAAATAAAAA
1 ATTTTAAAAATAAAAA
*
14376190 ATTTTAAAAA-AAAAT
1 ATTTTAAAAATAAAAA
14376205 ATTTTAAAAATA
1 ATTTTAAAAATA
14376217 TTTTAAAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 14 0.56
16 11 0.44
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
ATTTTAAAAATAAAAA
Found at i:14376225 original size:10 final size:11
Alignment explanation
Indices: 14376199--14376224 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
14376189 AATTTTAAAA
14376199 AAAAATATTTT
1 AAAAATATTTT
14376210 AAAAATATTTT
1 AAAAATATTTT
14376221 AAAA
1 AAAA
14376225 TTAAAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:14379578 original size:18 final size:18
Alignment explanation
Indices: 14379555--14379589 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
14379545 TTAGAATTTT
14379555 TATTTTTAAAAAAAATTG
1 TATTTTTAAAAAAAATTG
* *
14379573 TATTTTTTATAAAAATT
1 TATTTTTAAAAAAAATT
14379590 ATGAAACTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (18 bp):
TATTTTTAAAAAAAATTG
Found at i:14380165 original size:5 final size:5
Alignment explanation
Indices: 14380155--14380276 Score: 244
Period size: 5 Copynumber: 24.4 Consensus size: 5
14380145 TTTACTTAAG
14380155 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
14380205 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
14380255 TATTA TATTA TATTA TATTA TA
1 TATTA TATTA TATTA TATTA TA
14380277 AAAGAAAAGA
Statistics
Matches: 117, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 117 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATTA
Found at i:14381062 original size:24 final size:26
Alignment explanation
Indices: 14381008--14381062 Score: 64
Period size: 24 Copynumber: 2.2 Consensus size: 26
14380998 GTGTTTTGCA
14381008 ATTGAAATGGATTGATTTAGTATGTG
1 ATTGAAATGGATTGATTTAGTATGTG
*
14381034 A-TGAAAT-TATTGAATTTA-TAT-TG
1 ATTGAAATGGATTG-ATTTAGTATGTG
14381057 ATTGAA
1 ATTGAA
14381063 TTGGTATATG
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
23 3 0.12
24 11 0.42
25 11 0.42
26 1 0.04
ACGTcount: A:0.36, C:0.00, G:0.20, T:0.44
Consensus pattern (26 bp):
ATTGAAATGGATTGATTTAGTATGTG
Found at i:14381263 original size:41 final size:39
Alignment explanation
Indices: 14381219--14381353 Score: 139
Period size: 40 Copynumber: 3.4 Consensus size: 39
14381209 GACTTCGAGT
*
14381219 CGATGAGACACTGGGTGTCAATTTACTACTTCGGATTAATT
1 CGATGAGACACTGGGTGTCAATTTA-TACTTCGGATT-ATC
* * * * *
14381260 CGATGAGGCACTGGTTGCCAA-TT-TACTTCGGTTTAGC
1 CGATGAGACACTGGGTGTCAATTTATACTTCGGATTATC
* * *
14381297 CAATGAGACACTGGGTGTCAGTTTATTACTTCGAATTATC
1 CGATGAGACACTGGGTGTCAATTTA-TACTTCGGATTATC
*
14381337 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
14381354 CCAAACTGGT
Statistics
Matches: 75, Mismatches: 16, Indels: 7
0.77 0.16 0.07
Matches are distributed among these distances:
37 17 0.23
38 12 0.16
40 28 0.37
41 18 0.24
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.32
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAATTTATACTTCGGATTATC
Found at i:14388713 original size:27 final size:27
Alignment explanation
Indices: 14388655--14388716 Score: 76
Period size: 27 Copynumber: 2.3 Consensus size: 27
14388645 AATTATGGCC
14388655 AAAAAGTTTATAATAATTTACATGTTAT
1 AAAAAGTTTATAATAATTTA-ATGTTAT
14388683 -AAAAGTGTTATAATATATTT-AT-TTAT
1 AAAAAGT-TTATAATA-ATTTAATGTTAT
14388709 AAAAAGTT
1 AAAAAGTT
14388717 AGATTACGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
26 5 0.16
27 14 0.45
28 8 0.26
29 4 0.13
ACGTcount: A:0.47, C:0.02, G:0.08, T:0.44
Consensus pattern (27 bp):
AAAAAGTTTATAATAATTTAATGTTAT
Found at i:14389697 original size:76 final size:76
Alignment explanation
Indices: 14389601--14389754 Score: 263
Period size: 76 Copynumber: 2.0 Consensus size: 76
14389591 GACAAGAATA
* *
14389601 ACGACCTTAGGGTTGGCTTTACTTTAGATATGTAGATGATATTAGTAAACCCATTGCTAATCTTA
1 ACGACCTTAGGGCTGGCTTTACTTTAGATATGCAGATGATATTAGTAAACCCATTGCTAATCTTA
14389666 CCTTACCAACC
66 CCTTACCAACC
* * *
14389677 ACGACCTTGGGGCTGGCTTTAGTTTAGATTTGCAGATGATATTAGTAAACCCATTGCTAATCTTA
1 ACGACCTTAGGGCTGGCTTTACTTTAGATATGCAGATGATATTAGTAAACCCATTGCTAATCTTA
14389742 CCTTACCAACC
66 CCTTACCAACC
14389753 AC
1 AC
14389755 ATTTTTCTAG
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
76 73 1.00
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (76 bp):
ACGACCTTAGGGCTGGCTTTACTTTAGATATGCAGATGATATTAGTAAACCCATTGCTAATCTTA
CCTTACCAACC
Found at i:14394808 original size:27 final size:27
Alignment explanation
Indices: 14394778--14394840 Score: 99
Period size: 27 Copynumber: 2.3 Consensus size: 27
14394768 TTCATAAAGG
*
14394778 TTATATATTATAAATTTTATGTTATTT
1 TTATTTATTATAAATTTTATGTTATTT
* *
14394805 TTATTTATTTTACATTTTATGTTATTT
1 TTATTTATTATAAATTTTATGTTATTT
14394832 TTATTTATT
1 TTATTTATT
14394841 TTACCTATTA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.27, C:0.02, G:0.03, T:0.68
Consensus pattern (27 bp):
TTATTTATTATAAATTTTATGTTATTT
Found at i:14394841 original size:27 final size:27
Alignment explanation
Indices: 14394791--14394844 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
14394781 TATATTATAA
14394791 ATTTTATGTTATTTTTATTTATTTTAC
1 ATTTTATGTTATTTTTATTTATTTTAC
14394818 ATTTTATGTTATTTTTATTTATTTTAC
1 ATTTTATGTTATTTTTATTTATTTTAC
14394845 CTATTATAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.22, C:0.04, G:0.04, T:0.70
Consensus pattern (27 bp):
ATTTTATGTTATTTTTATTTATTTTAC
Found at i:14394851 original size:27 final size:27
Alignment explanation
Indices: 14394794--14394851 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
14394784 ATTATAAATT
*
14394794 TTATGTTATTTTTATTTATTTTACATT
1 TTATGTTATTTTTATTTATTTTACATA
*
14394821 TTATGTTATTTTTATTTATTTTACCTA
1 TTATGTTATTTTTATTTATTTTACATA
14394848 TTAT
1 TTAT
14394852 AAAATGGGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.22, C:0.05, G:0.03, T:0.69
Consensus pattern (27 bp):
TTATGTTATTTTTATTTATTTTACATA
Found at i:14396496 original size:21 final size:21
Alignment explanation
Indices: 14396433--14396496 Score: 92
Period size: 21 Copynumber: 3.0 Consensus size: 21
14396423 CTTACACCAT
*
14396433 GTTGTGGATAAACCACTCATC
1 GTTGTGGATGAACCACTCATC
* * *
14396454 ATTGTGGATGAACTACTTATC
1 GTTGTGGATGAACCACTCATC
14396475 GTTGTGGATGAACCACTCATC
1 GTTGTGGATGAACCACTCATC
14396496 G
1 G
14396497 GTGCAGATAA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (21 bp):
GTTGTGGATGAACCACTCATC
Found at i:14396793 original size:21 final size:21
Alignment explanation
Indices: 14396769--14396815 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
14396759 ACGGTATGGG
* *
14396769 TAAACCACTCATC-GATGTAGA
1 TAAACCACTAATCTG-TGCAGA
14396790 TAAACCACTAATCTGTGCAGA
1 TAAACCACTAATCTGTGCAGA
14396811 TAAAC
1 TAAAC
14396816 TGCTCTTACT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 22 0.96
22 1 0.04
ACGTcount: A:0.40, C:0.23, G:0.13, T:0.23
Consensus pattern (21 bp):
TAAACCACTAATCTGTGCAGA
Found at i:14396905 original size:34 final size:34
Alignment explanation
Indices: 14396866--14396942 Score: 111
Period size: 34 Copynumber: 2.3 Consensus size: 34
14396856 TGCAATATGG
**
14396866 CATGCTTATAACAGATCAATATGGTAGCAATAA-A
1 CATGCTTATAACAGATCAATACAGTAGCAA-AAGA
*
14396900 CATGCTTATAACAGATCAATACAGTAGCAAAAGT
1 CATGCTTATAACAGATCAATACAGTAGCAAAAGA
14396934 CATGCTTAT
1 CATGCTTAT
14396943 CATGTATTCG
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
33 2 0.05
34 37 0.95
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.27
Consensus pattern (34 bp):
CATGCTTATAACAGATCAATACAGTAGCAAAAGA
Found at i:14397771 original size:5 final size:5
Alignment explanation
Indices: 14397761--14397797 Score: 56
Period size: 5 Copynumber: 7.0 Consensus size: 5
14397751 TAAGAATGAG
14397761 AGAAA AGAAA AGAAAA AGAAA AGAGAA AGAAA AGAAA
1 AGAAA AGAAA AG-AAA AGAAA AGA-AA AGAAA AGAAA
14397798 TAGGAGATGA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 20 0.67
6 10 0.33
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (5 bp):
AGAAA
Found at i:14397779 original size:11 final size:11
Alignment explanation
Indices: 14397763--14397797 Score: 61
Period size: 11 Copynumber: 3.2 Consensus size: 11
14397753 AGAATGAGAG
14397763 AAAAGAAAAGA
1 AAAAGAAAAGA
14397774 AAAAGAAAAGA
1 AAAAGAAAAGA
*
14397785 GAAAGAAAAGA
1 AAAAGAAAAGA
14397796 AA
1 AA
14397798 TAGGAGATGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (11 bp):
AAAAGAAAAGA
Found at i:14397782 original size:16 final size:16
Alignment explanation
Indices: 14397761--14397797 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
14397751 TAAGAATGAG
14397761 AGAAAAGA-AAAGAAAA
1 AGAAAAGAGAAAG-AAA
14397777 AGAAAAGAGAAAGAAA
1 AGAAAAGAGAAAGAAA
14397793 AGAAA
1 AGAAA
14397798 TAGGAGATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 16 0.80
17 4 0.20
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (16 bp):
AGAAAAGAGAAAGAAA
Found at i:14420546 original size:17 final size:18
Alignment explanation
Indices: 14420516--14420561 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
14420506 ATTTAAATTG
14420516 CGGTCGCGGTCGCGTTTT
1 CGGTCGCGGTCGCGTTTT
14420534 CGGTCGC-GTCGCG-TTT
1 CGGTCGCGGTCGCGTTTT
14420550 --GTCGCGGTCGCG
1 CGGTCGCGGTCGCG
14420562 GACATAACGG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 5 0.19
15 6 0.22
16 3 0.11
17 6 0.22
18 7 0.26
ACGTcount: A:0.00, C:0.30, G:0.41, T:0.28
Consensus pattern (18 bp):
CGGTCGCGGTCGCGTTTT
Found at i:14421839 original size:9 final size:8
Alignment explanation
Indices: 14421818--14421842 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
14421808 TGTTGTATTT
14421818 ATTTTTTA
1 ATTTTTTA
14421826 ATTTTTTA
1 ATTTTTTA
14421834 ATTTTTTA
1 ATTTTTTA
14421842 A
1 A
14421843 ATACAACTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (8 bp):
ATTTTTTA
Found at i:14424331 original size:21 final size:22
Alignment explanation
Indices: 14424305--14424354 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
14424295 CAAAACTTAA
*
14424305 TTAATTAAAT-TAA-ATTAAATC
1 TTAATTAAATCTAATACTAAA-C
14424326 TTAATT-AATCTAATACTAAAC
1 TTAATTAAATCTAATACTAAAC
14424347 TTAATTAA
1 TTAATTAA
14424355 TCGAAAGTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 3 0.12
21 16 0.64
22 6 0.24
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (22 bp):
TTAATTAAATCTAATACTAAAC
Found at i:14430839 original size:22 final size:22
Alignment explanation
Indices: 14430814--14430864 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
14430804 TGTAATAAAC
*
14430814 TATAAGTTCATATGTAACAACA
1 TATAAGTTCACATGTAACAACA
* * **
14430836 TATAGGTTCGCATGTATTAACA
1 TATAAGTTCACATGTAACAACA
14430858 TATAAGT
1 TATAAGT
14430865 AGTGGTTTGC
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35
Consensus pattern (22 bp):
TATAAGTTCACATGTAACAACA
Found at i:14437925 original size:22 final size:24
Alignment explanation
Indices: 14437888--14437931 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
14437878 TAATTTATAG
14437888 AGAGAAGAGAAGAGAAAATAAAAT
1 AGAGAAGAGAAGAGAAAATAAAAT
*
14437912 AGAGAA-AG-AGAGAACATAAA
1 AGAGAAGAGAAGAGAAAATAAA
14437932 GAAATTCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 11 0.58
23 2 0.11
24 6 0.32
ACGTcount: A:0.66, C:0.02, G:0.25, T:0.07
Consensus pattern (24 bp):
AGAGAAGAGAAGAGAAAATAAAAT
Found at i:14439253 original size:25 final size:25
Alignment explanation
Indices: 14439225--14439278 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 25
14439215 AAAAACATTT
14439225 TTATACTAAATACGAAATTTCAATA
1 TTATACTAAATACGAAATTTCAATA
**
14439250 TTATTGTAAATACGAAATTTCAATA
1 TTATACTAAATACGAAATTTCAATA
14439275 TTAT
1 TTAT
14439279 TGTTCGATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.44, C:0.09, G:0.06, T:0.41
Consensus pattern (25 bp):
TTATACTAAATACGAAATTTCAATA
Found at i:14439279 original size:25 final size:25
Alignment explanation
Indices: 14439231--14439281 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
14439221 ATTTTTATAC
14439231 TAAATACGAAATTTCAATATTATTG
1 TAAATACGAAATTTCAATATTATTG
14439256 TAAATACGAAATTTCAATATTATTG
1 TAAATACGAAATTTCAATATTATTG
14439281 T
1 T
14439282 TCGATATATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.43, C:0.08, G:0.08, T:0.41
Consensus pattern (25 bp):
TAAATACGAAATTTCAATATTATTG
Found at i:14451343 original size:12 final size:13
Alignment explanation
Indices: 14451326--14451367 Score: 54
Period size: 11 Copynumber: 3.5 Consensus size: 13
14451316 TTGTGAATAA
14451326 AAAAATAA-AAAT
1 AAAAATAAGAAAT
14451338 AAAAATAAGAAAT
1 AAAAATAAGAAAT
14451351 --AAATAAGAAAT
1 AAAAATAAGAAAT
*
14451362 AGAAAT
1 AAAAAT
14451368 TAAAAAAACA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
11 11 0.41
12 8 0.30
13 8 0.30
ACGTcount: A:0.76, C:0.00, G:0.07, T:0.17
Consensus pattern (13 bp):
AAAAATAAGAAAT
Found at i:14451348 original size:38 final size:38
Alignment explanation
Indices: 14451266--14451349 Score: 95
Period size: 38 Copynumber: 2.3 Consensus size: 38
14451256 TGAAAAGAAG
* *
14451266 AAATAA-AAAAATTTAGTAATAAAGAAATAAAAAATAG
1 AAATAAGAAAAATTTAGTAATAAAAAAATAAAAAATAA
*
14451303 TAA-AAGAAGAAATTT-GTGAATAAAAAAAT-AAAAATAA
1 AAATAAGAA-AAATTTAGT-AATAAAAAAATAAAAAATAA
14451340 AAATAAGAAA
1 AAATAAGAAA
14451350 TAAATAAGAA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
36 2 0.05
37 16 0.41
38 21 0.54
ACGTcount: A:0.70, C:0.00, G:0.10, T:0.20
Consensus pattern (38 bp):
AAATAAGAAAAATTTAGTAATAAAAAAATAAAAAATAA
Found at i:14451356 original size:17 final size:17
Alignment explanation
Indices: 14451334--14451367 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
14451324 AAAAAAATAA
14451334 AAATAA-AAATAAGAAAT
1 AAATAAGAAAT-AGAAAT
14451351 AAATAAGAAATAGAAAT
1 AAATAAGAAATAGAAAT
14451368 TAAAAAAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.74, C:0.00, G:0.09, T:0.18
Consensus pattern (17 bp):
AAATAAGAAATAGAAAT
Found at i:14453972 original size:79 final size:79
Alignment explanation
Indices: 14453841--14454067 Score: 292
Period size: 79 Copynumber: 2.9 Consensus size: 79
14453831 ACATGCACGA
* ** * * * *
14453841 TTATAAATCAGAATCAGTAACAAGCAATTTAACATATGCAGATATCGTATATTCTTCATCAATAG
1 TTATAAATCAGAATCAGTAACAATCAATCCAACATTTTCAGATATCGCATATTCTTCATCAACAG
*
14453906 AGTAACATAAACGG
66 AATAACATAAACGG
* * *
14453920 TTATAAATTAGAATCGGTAACAATCAATCCAACATTTTCAGATATCGCATATTCTTTATCAACAG
1 TTATAAATCAGAATCAGTAACAATCAATCCAACATTTTCAGATATCGCATATTCTTCATCAACAG
* ** *
14453985 AATCATGTAAAGGG
66 AATAACATAAACGG
* * *
14453999 CTATAAATCAAAATCAGTAACAATCAATCCAACATTTTCAAATATCGCATATTCTTCATCAACAG
1 TTATAAATCAGAATCAGTAACAATCAATCCAACATTTTCAGATATCGCATATTCTTCATCAACAG
14454064 AATA
66 AATA
14454068 GCGCAGAGGC
Statistics
Matches: 126, Mismatches: 22, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
79 126 1.00
ACGTcount: A:0.42, C:0.18, G:0.10, T:0.30
Consensus pattern (79 bp):
TTATAAATCAGAATCAGTAACAATCAATCCAACATTTTCAGATATCGCATATTCTTCATCAACAG
AATAACATAAACGG
Found at i:14457587 original size:19 final size:19
Alignment explanation
Indices: 14457563--14457599 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
14457553 AAAAAAAAAC
14457563 CAATCTATGATTTGAGGAA
1 CAATCTATGATTTGAGGAA
14457582 CAATCTATGATTTGAGGA
1 CAATCTATGATTTGAGGA
14457600 TTTTTACAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.35, C:0.11, G:0.22, T:0.32
Consensus pattern (19 bp):
CAATCTATGATTTGAGGAA
Found at i:14462441 original size:16 final size:17
Alignment explanation
Indices: 14462420--14462452 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
14462410 ATTTAATTTT
14462420 TTTTAT-TATTTATAAG
1 TTTTATATATTTATAAG
14462436 TTTTATCATATTTATAA
1 TTTTAT-ATATTTATAA
14462453 ATAAGATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.61
Consensus pattern (17 bp):
TTTTATATATTTATAAG
Found at i:14463087 original size:15 final size:15
Alignment explanation
Indices: 14463058--14463086 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
14463048 AAGGGTACAG
14463058 TAAAGTATTAAAAAA
1 TAAAGTATTAAAAAA
14463073 TAAA-TATTAAAAAA
1 TAAAGTATTAAAAAA
14463087 AATACATGTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (15 bp):
TAAAGTATTAAAAAA
Found at i:14463998 original size:22 final size:21
Alignment explanation
Indices: 14463957--14463999 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
14463947 TTACTAAGCA
14463957 TTCATTGTTTACGTAGTTTTCT
1 TTCATTGTTTAC-TAGTTTTCT
14463979 TTCATTGCTTTA-TAGATTTTC
1 TTCATTG-TTTACTAG-TTTTC
14464000 GGAAGCTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 3 0.16
22 12 0.63
23 4 0.21
ACGTcount: A:0.16, C:0.14, G:0.12, T:0.58
Consensus pattern (21 bp):
TTCATTGTTTACTAGTTTTCT
Found at i:14468509 original size:18 final size:20
Alignment explanation
Indices: 14468474--14468519 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
14468464 TAGTAATTTT
*
14468474 TTATTAAAATTGTTAG-AAA
1 TTATTAAAATTATTAGAAAA
14468493 TTATTAAAA-TATTAGAAAA
1 TTATTAAAATTATTAGAAAA
14468512 TT-TTAAAA
1 TTATTAAAA
14468520 AATGTCCAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 11 0.44
19 14 0.56
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (20 bp):
TTATTAAAATTATTAGAAAA
Found at i:14470756 original size:9 final size:9
Alignment explanation
Indices: 14470742--14470770 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
14470732 TTTCAAATCA
14470742 CAACCAATT
1 CAACCAATT
14470751 CAACCAATT
1 CAACCAATT
14470760 CAACCAATT
1 CAACCAATT
14470769 CA
1 CA
14470771 TTTCACATTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.45, C:0.34, G:0.00, T:0.21
Consensus pattern (9 bp):
CAACCAATT
Found at i:14471385 original size:13 final size:14
Alignment explanation
Indices: 14471361--14471392 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
14471351 CCAAACACAC
14471361 CAGTATACAGTAAT
1 CAGTATACAGTAAT
14471375 CAGTA-ACAGTAAT
1 CAGTATACAGTAAT
14471388 -AGTAT
1 CAGTAT
14471393 TCAACACACA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 4 0.24
13 8 0.47
14 5 0.29
ACGTcount: A:0.44, C:0.12, G:0.16, T:0.28
Consensus pattern (14 bp):
CAGTATACAGTAAT
Found at i:14471422 original size:39 final size:39
Alignment explanation
Indices: 14471372--14471541 Score: 191
Period size: 39 Copynumber: 4.2 Consensus size: 39
14471362 AGTATACAGT
* * *
14471372 AATCAGTAACAGTAATAGTATTCAACACACAAAGTGCTG
1 AATCAGTAACAGTAACAGTATTCGACACACAAAGTGCCG
*
14471411 AACCTGTAACAGTAACGGTAACAGTATTCGACACACAAAGTGCCG
1 AA----T--CAGTAACAGTAACAGTATTCGACACACAAAGTGCCG
*
14471456 AGTCAGTAACAGTAACAGTATTCGACACACAAAGTGCCG
1 AATCAGTAACAGTAACAGTATTCGACACACAAAGTGCCG
* * *
14471495 AATCAGTAACAGTAACAGTAGTCGGCACA-TAAGTGCCTG
1 AATCAGTAACAGTAACAGTATTCGACACACAAAGTGCC-G
14471534 -ATCAGTAA
1 AATCAGTAA
14471542 GCCGGCAAAT
Statistics
Matches: 114, Mismatches: 10, Indels: 15
0.82 0.07 0.11
Matches are distributed among these distances:
38 15 0.13
39 64 0.56
41 1 0.01
43 1 0.01
45 33 0.29
ACGTcount: A:0.39, C:0.21, G:0.19, T:0.20
Consensus pattern (39 bp):
AATCAGTAACAGTAACAGTATTCGACACACAAAGTGCCG
Found at i:14471426 original size:45 final size:43
Alignment explanation
Indices: 14471370--14471514 Score: 181
Period size: 45 Copynumber: 3.3 Consensus size: 43
14471360 CCAGTATACA
* * *
14471370 GTAATCAGTAACAGTAATAGTATTCAACACACAAAGTGCTGAACC
1 GTAA-CAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAA-C
*
14471415 TGTAACAGTAACGGTAACAGTATTCGACACACAAAGTGCCG-A-
1 -GTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAAC
14471457 GT--CAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATC
1 GTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAA-C
14471499 AGTAACAGTAACAGTA
1 -GTAACAGTAACAGTA
14471515 GTCGGCACAT
Statistics
Matches: 88, Mismatches: 5, Indels: 13
0.83 0.05 0.12
Matches are distributed among these distances:
39 35 0.40
40 1 0.01
41 2 0.02
43 2 0.02
44 1 0.01
45 43 0.49
46 4 0.05
ACGTcount: A:0.41, C:0.21, G:0.19, T:0.20
Consensus pattern (43 bp):
GTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAAC
Found at i:14472589 original size:10 final size:10
Alignment explanation
Indices: 14472574--14472608 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
14472564 CTCTGTTTCT
14472574 TTTTATGTTC
1 TTTTATGTTC
14472584 TTTTATGTTC
1 TTTTATGTTC
*
14472594 TTTTGT-TTC
1 TTTTATGTTC
14472603 TTTTAT
1 TTTTAT
14472609 TTTACTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 8 0.35
10 15 0.65
ACGTcount: A:0.09, C:0.09, G:0.09, T:0.74
Consensus pattern (10 bp):
TTTTATGTTC
Found at i:14473717 original size:36 final size:33
Alignment explanation
Indices: 14473673--14473751 Score: 95
Period size: 34 Copynumber: 2.3 Consensus size: 33
14473663 AATAATCATC
* *
14473673 TTTTTAAATAAATTTTTACTACTTAATAAAATTAA
1 TTTTTAAAT-AACTTTTACTA-TTAATAAAATAAA
*
14473708 TTTTATAAATAACTTTTATTATTAATAAAATAAA
1 TTTT-TAAATAACTTTTACTATTAATAAAATAAA
14473742 TTATTTAAAT
1 TT-TTTAAAT
14473752 GTTATTAATT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
34 19 0.49
35 15 0.38
36 5 0.13
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (33 bp):
TTTTTAAATAACTTTTACTATTAATAAAATAAA
Found at i:14476636 original size:40 final size:38
Alignment explanation
Indices: 14476577--14476714 Score: 95
Period size: 40 Copynumber: 3.5 Consensus size: 38
14476567 AACACACCAG
*
14476577 TTTGGTACCCAATGCCTCATCGGATAATTCGAAGTACTAA
1 TTTGGCACCCAATGCCTCATCGGATAA-TCGAAGTA-TAA
* * *
14476617 TTTGGCACCCAGTGTCTCATCAACGA-AA-CTGAAGTA-AA
1 TTTGGCACCCAATGCCTCATC--GGATAATC-GAAGTATAA
* *
14476655 -TTGGCACCCAGTGCCTCATCGAATTAATCTGAAGTAGTAA
1 TTTGGCACCCAATGCCTCATCGGA-TAATC-GAAGTA-TAA
* * *
14476695 ATTGACACCCAATGTCTCAT
1 TTTGGCACCCAATGCCTCAT
14476715 TGACTCGAAG
Statistics
Matches: 79, Mismatches: 10, Indels: 17
0.75 0.09 0.16
Matches are distributed among these distances:
35 1 0.01
37 21 0.27
38 10 0.13
39 1 0.01
40 26 0.33
41 18 0.23
42 2 0.03
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (38 bp):
TTTGGCACCCAATGCCTCATCGGATAATCGAAGTATAA
Found at i:14476704 original size:41 final size:40
Alignment explanation
Indices: 14476578--14476714 Score: 113
Period size: 37 Copynumber: 3.5 Consensus size: 40
14476568 ACACACCAGT
* * * *
14476578 TTGGTACCCAATGCCTCATCGGATAAT-TCGAAGTACTAAT
1 TTGGCACCCAATGCCTCATCGAATAATCT-GAAGTAGTAAA
* * * *
14476618 TTGGCACCCAGTGTCTCATC-AACGAAACTG-A--AGTAAA
1 TTGGCACCCAATGCCTCATCGAA-TAATCTGAAGTAGTAAA
*
14476655 TTGGCACCCAGTGCCTCATCGAATTAATCTGAAGTAGTAAA
1 TTGGCACCCAATGCCTCATCGAA-TAATCTGAAGTAGTAAA
* *
14476696 TTGACACCCAATGTCTCAT
1 TTGGCACCCAATGCCTCAT
14476715 TGACTCGAAG
Statistics
Matches: 76, Mismatches: 15, Indels: 11
0.75 0.15 0.11
Matches are distributed among these distances:
37 23 0.30
38 7 0.09
39 3 0.04
40 20 0.26
41 23 0.30
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (40 bp):
TTGGCACCCAATGCCTCATCGAATAATCTGAAGTAGTAAA
Found at i:14477703 original size:10 final size:9
Alignment explanation
Indices: 14477686--14477751 Score: 50
Period size: 8 Copynumber: 7.4 Consensus size: 9
14477676 ACTTATTATA
14477686 ATATATAAT
1 ATATATAAT
14477695 ATAATATAAT
1 AT-ATATAAT
*
14477705 ATATATACT
1 ATATATAAT
14477714 -TA-ATAATT
1 ATATATAA-T
* *
14477722 AAGATCTAAT
1 -ATATATAAT
14477732 AT-TATAAT
1 ATATATAAT
14477740 AT-TATAAT
1 ATATATAAT
14477748 ATAT
1 ATAT
14477752 TTTTTAACTT
Statistics
Matches: 45, Mismatches: 6, Indels: 12
0.71 0.10 0.19
Matches are distributed among these distances:
7 3 0.07
8 18 0.40
9 10 0.22
10 11 0.24
11 3 0.07
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.44
Consensus pattern (9 bp):
ATATATAAT
Found at i:14480465 original size:3 final size:3
Alignment explanation
Indices: 14480457--14480509 Score: 88
Period size: 3 Copynumber: 17.7 Consensus size: 3
14480447 ACTTTGTTAT
* *
14480457 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTT TTC TTC TTC TTT TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
14480505 TTC TT
1 TTC TT
14480510 TTCACACTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (3 bp):
TTC
Found at i:14483959 original size:16 final size:16
Alignment explanation
Indices: 14483938--14483973 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
14483928 TCTTTCTCTT
*
14483938 TTTCTTTTTCTTTTTG
1 TTTCTTTTTCTTTTTA
*
14483954 TTTCTTTTTGTTTTTA
1 TTTCTTTTTCTTTTTA
14483970 TTTC
1 TTTC
14483974 GTTTAACCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.03, C:0.11, G:0.06, T:0.81
Consensus pattern (16 bp):
TTTCTTTTTCTTTTTA
Found at i:14484078 original size:8 final size:8
Alignment explanation
Indices: 14484065--14484096 Score: 64
Period size: 8 Copynumber: 4.0 Consensus size: 8
14484055 ATAATTAAGA
14484065 TATAATAT
1 TATAATAT
14484073 TATAATAT
1 TATAATAT
14484081 TATAATAT
1 TATAATAT
14484089 TATAATAT
1 TATAATAT
14484097 ATATTTTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (8 bp):
TATAATAT
Found at i:14484086 original size:27 final size:26
Alignment explanation
Indices: 14484014--14484102 Score: 85
Period size: 27 Copynumber: 3.2 Consensus size: 26
14484004 TTTATTTATT
14484014 ATATTTACTTATTATAATATATAATATA
1 ATATTTA--TATTATAATATATAATATA
14484042 ATATTTATACTTAATAAT-TA-AGATATA
1 ATATTTATA-TT-ATAATATATA-ATATA
14484069 ATATTATAATATTATAATATTATAATAT-
1 ATATT-T-ATATTATAATA-TATAATATA
14484097 ATATTT
1 ATATTT
14484103 TTTAACTTTA
Statistics
Matches: 53, Mismatches: 0, Indels: 17
0.76 0.00 0.24
Matches are distributed among these distances:
26 3 0.06
27 20 0.38
28 20 0.38
29 9 0.17
30 1 0.02
ACGTcount: A:0.47, C:0.02, G:0.01, T:0.49
Consensus pattern (26 bp):
ATATTTATATTATAATATATAATATA
Found at i:14484373 original size:14 final size:14
Alignment explanation
Indices: 14484356--14484382 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
14484346 ATATTTGTAA
14484356 TTTGAAAACTTAAG
1 TTTGAAAACTTAAG
14484370 TTTGAAAACTTAA
1 TTTGAAAACTTAA
14484383 TAAATATTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.07, G:0.11, T:0.37
Consensus pattern (14 bp):
TTTGAAAACTTAAG
Found at i:14484511 original size:13 final size:13
Alignment explanation
Indices: 14484476--14484513 Score: 67
Period size: 14 Copynumber: 2.8 Consensus size: 13
14484466 GAGATATTTG
14484476 TAATTTGAAAACT
1 TAATTTGAAAACT
14484489 TAAGTTTGAAAACT
1 TAA-TTTGAAAACT
14484503 TAATTTGAAAA
1 TAATTTGAAAA
14484514 TTTGGAAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 11 0.46
14 13 0.54
ACGTcount: A:0.47, C:0.05, G:0.11, T:0.37
Consensus pattern (13 bp):
TAATTTGAAAACT
Found at i:14484888 original size:69 final size:68
Alignment explanation
Indices: 14484766--14484945 Score: 254
Period size: 69 Copynumber: 2.6 Consensus size: 68
14484756 TTTCTTGTCT
* * * *
14484766 TTTCTTGCAAGTAATATTTCCTGTTCA-TGCATCATTTCTTGCAGGGAATCTTTCCTATTCACGC
1 TTTCTTGCAGGGAATCTTTCCTGTTCACT-CATCTTTTCTTGCAGGGAATCTTTCCTATTCACGC
14484830 ATCA
65 ATCA
* *
14484834 TTTCTTGCAGGGAATCTTTCCTGTTCACCTCATCTTTTCTTGCAGGGAATCTTTCCTGTTCATGC
1 TTTCTTGCAGGGAATCTTTCCTGTTCA-CTCATCTTTTCTTGCAGGGAATCTTTCCTATTCACGC
14484899 ATCA
65 ATCA
* * *
14484903 TTCCTTGCAGGGAATCTTTCCTGTTCACACATATTTTCTTGCA
1 TTTCTTGCAGGGAATCTTTCCTGTTCACTCATCTTTTCTTGCA
14484946 TCATTTCTTC
Statistics
Matches: 101, Mismatches: 9, Indels: 4
0.89 0.08 0.04
Matches are distributed among these distances:
68 38 0.38
69 62 0.61
70 1 0.01
ACGTcount: A:0.19, C:0.25, G:0.14, T:0.42
Consensus pattern (68 bp):
TTTCTTGCAGGGAATCTTTCCTGTTCACTCATCTTTTCTTGCAGGGAATCTTTCCTATTCACGCA
TCA
Found at i:14484944 original size:34 final size:34
Alignment explanation
Indices: 14484766--14484945 Score: 245
Period size: 34 Copynumber: 5.3 Consensus size: 34
14484756 TTTCTTGTCT
* * * *
14484766 TTTCTTGCAAGTAATATTTCCTGTTCATGCATCA
1 TTTCTTGCAGGGAATCTTTCCTGTTCACGCATCA
*
14484800 TTTCTTGCAGGGAATCTTTCCTATTCACGCATCA
1 TTTCTTGCAGGGAATCTTTCCTGTTCACGCATCA
* *
14484834 TTTCTTGCAGGGAATCTTTCCTGTTCACCTCATCT
1 TTTCTTGCAGGGAATCTTTCCTGTTCA-CGCATCA
*
14484869 TTTCTTGCAGGGAATCTTTCCTGTTCATGCATCA
1 TTTCTTGCAGGGAATCTTTCCTGTTCACGCATCA
* *
14484903 TTCCTTGCAGGGAATCTTTCCTGTTCACACAT-A
1 TTTCTTGCAGGGAATCTTTCCTGTTCACGCATCA
14484936 TTTTCTTGCA
1 -TTTCTTGCA
14484946 TCATTTCTTC
Statistics
Matches: 129, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
33 1 0.01
34 96 0.74
35 32 0.25
ACGTcount: A:0.19, C:0.25, G:0.14, T:0.42
Consensus pattern (34 bp):
TTTCTTGCAGGGAATCTTTCCTGTTCACGCATCA
Found at i:14485523 original size:13 final size:13
Alignment explanation
Indices: 14485507--14485535 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
14485497 GGAATTTGAA
14485507 TTGGGTGCCATAC
1 TTGGGTGCCATAC
14485520 TTGGGTGCCATAC
1 TTGGGTGCCATAC
14485533 TTG
1 TTG
14485536 AAATATATGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.14, C:0.21, G:0.31, T:0.34
Consensus pattern (13 bp):
TTGGGTGCCATAC
Found at i:14489244 original size:7 final size:6
Alignment explanation
Indices: 14489228--14489279 Score: 52
Period size: 6 Copynumber: 8.3 Consensus size: 6
14489218 ATTTTCCTGC
* *
14489228 AAAAAT AAAAAT GAAAAT -AAAAT AAAATAGT AAAAAT AAATAAT AATAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAA-A-T AAAAAT AAA-AAT AAAAAT
14489278 AA
1 AA
14489280 TAGGAAAATA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
5 5 0.12
6 23 0.57
7 7 0.17
8 5 0.12
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.21
Consensus pattern (6 bp):
AAAAAT
Found at i:14489263 original size:25 final size:25
Alignment explanation
Indices: 14489233--14489292 Score: 72
Period size: 24 Copynumber: 2.4 Consensus size: 25
14489223 CCTGCAAAAA
14489233 TAAAAATGAAAATAA-AATAA-AATAG
1 TAAAAAT--AAATAATAATAATAATAG
14489258 TAAAAATAAATAATAATAATAATAG
1 TAAAAATAAATAATAATAATAATAG
*
14489283 -GAAAATAAAT
1 TAAAAATAAAT
14489293 TTTTTTCAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
23 6 0.19
24 14 0.44
25 12 0.38
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (25 bp):
TAAAAATAAATAATAATAATAATAG
Found at i:14495282 original size:20 final size:23
Alignment explanation
Indices: 14495247--14495291 Score: 69
Period size: 20 Copynumber: 2.1 Consensus size: 23
14495237 GAACAAATTG
14495247 TTGATTCTATTTCTTTTTTG-AT
1 TTGATTCTATTTCTTTTTTGTAT
14495269 TTGA-TCTA-TTCTTTTTTGTAT
1 TTGATTCTATTTCTTTTTTGTAT
14495290 TT
1 TT
14495292 TTTTTCTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 10 0.45
21 8 0.36
22 4 0.18
ACGTcount: A:0.13, C:0.09, G:0.09, T:0.69
Consensus pattern (23 bp):
TTGATTCTATTTCTTTTTTGTAT
Found at i:14495345 original size:21 final size:23
Alignment explanation
Indices: 14495321--14495363 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 23
14495311 TAATTTTTTT
*
14495321 AAAACATATTT-CTTCT-TTTAG
1 AAAACAGATTTGCTTCTGTTTAG
*
14495342 AAAAGAGATTTGCTTCTGTTTA
1 AAAACAGATTTGCTTCTGTTTA
14495364 TGATTAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 9 0.50
22 5 0.28
23 4 0.22
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.44
Consensus pattern (23 bp):
AAAACAGATTTGCTTCTGTTTAG
Found at i:14499410 original size:17 final size:17
Alignment explanation
Indices: 14499388--14499423 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
14499378 CTATGTCCTT
14499388 AACATGCCAAGGTATAA
1 AACATGCCAAGGTATAA
14499405 AACATGCCAAGGTATAA
1 AACATGCCAAGGTATAA
14499422 AA
1 AA
14499424 TATCTAGATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.50, C:0.17, G:0.17, T:0.17
Consensus pattern (17 bp):
AACATGCCAAGGTATAA
Found at i:14505867 original size:39 final size:38
Alignment explanation
Indices: 14505794--14505871 Score: 104
Period size: 39 Copynumber: 2.0 Consensus size: 38
14505784 TAATTAATTC
14505794 ATGGAAGACATTACTTAAATTATCATTCGATTTTTTTT
1 ATGGAAGACATTACTTAAATTATCATTCGATTTTTTTT
* * *
14505832 ATGGAAGACGTTAC-TAAGGATTATCATTTGCTTTTTTTT
1 ATGGAAGACATTACTTAA--ATTATCATTCGATTTTTTTT
14505871 A
1 A
14505872 ATAAAGGATA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
37 3 0.09
38 13 0.37
39 19 0.54
ACGTcount: A:0.29, C:0.10, G:0.14, T:0.46
Consensus pattern (38 bp):
ATGGAAGACATTACTTAAATTATCATTCGATTTTTTTT
Found at i:14510109 original size:16 final size:16
Alignment explanation
Indices: 14510090--14510122 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
14510080 AAATGAAATG
14510090 ATGAAAAT-AAAATAAA
1 ATGAAAATGAAAA-AAA
14510106 ATGAAAATGAAAAAAA
1 ATGAAAATGAAAAAAA
14510122 A
1 A
14510123 GGGATTTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (16 bp):
ATGAAAATGAAAAAAA
Found at i:14510110 original size:24 final size:21
Alignment explanation
Indices: 14510079--14510122 Score: 61
Period size: 24 Copynumber: 2.0 Consensus size: 21
14510069 TGATAGGAAA
14510079 AAAATGAAATGATGAAAATAAAAT
1 AAAATGAAA--ATGAAAA-AAAAT
14510103 AAAATGAAAATGAAAAAAAA
1 AAAATGAAAATGAAAAAAAA
14510123 GGGATTTTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 4 0.20
22 7 0.35
24 9 0.45
ACGTcount: A:0.73, C:0.00, G:0.11, T:0.16
Consensus pattern (21 bp):
AAAATGAAAATGAAAAAAAAT
Found at i:14515022 original size:14 final size:14
Alignment explanation
Indices: 14515003--14515030 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
14514993 CCAGGTTACT
14515003 ATAAAACAAAGTAA
1 ATAAAACAAAGTAA
14515017 ATAAAACAAAGTAA
1 ATAAAACAAAGTAA
14515031 GCATTTAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.71, C:0.07, G:0.07, T:0.14
Consensus pattern (14 bp):
ATAAAACAAAGTAA
Found at i:14515635 original size:23 final size:25
Alignment explanation
Indices: 14515609--14515679 Score: 83
Period size: 23 Copynumber: 2.9 Consensus size: 25
14515599 CATATATCGA
* *
14515609 GAAGTTCAAGCGAGCCA-T-ATCAG
1 GAAGCTCAAGAGAGCCATTAATCAG
14515632 GAAGCTCAAGAGAGCCATTAATCAG
1 GAAGCTCAAGAGAGCCATTAATCAG
* *
14515657 GAAGCTCACAAAGAGCCTTTAAT
1 GAAGCTCA-AGAGAGCCATTAAT
14515680 AGGGAAGTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
23 15 0.37
24 1 0.02
25 13 0.32
26 12 0.29
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.18
Consensus pattern (25 bp):
GAAGCTCAAGAGAGCCATTAATCAG
Found at i:14515661 original size:25 final size:25
Alignment explanation
Indices: 14515569--14515679 Score: 95
Period size: 25 Copynumber: 4.5 Consensus size: 25
14515559 GAAGCTTTGA
* **
14515569 AGAGCCATTAATCGGGAAGCTCCGG
1 AGAGCCATTAATCAGGAAGCTCAAG
* *
14515594 ATAGCCA-TATATC-GAGAAGTTCAAG
1 AGAGCCATTA-ATCAG-GAAGCTCAAG
*
14515619 CGAGCCA-T-ATCAGGAAGCTCAAG
1 AGAGCCATTAATCAGGAAGCTCAAG
*
14515642 AGAGCCATTAATCAGGAAGCTCACAA
1 AGAGCCATTAATCAGGAAGCTCA-AG
*
14515668 AGAGCCTTTAAT
1 AGAGCCATTAAT
14515680 AGGGAAGTTT
Statistics
Matches: 70, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
23 18 0.26
24 5 0.07
25 35 0.50
26 12 0.17
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (25 bp):
AGAGCCATTAATCAGGAAGCTCAAG
Found at i:14518698 original size:225 final size:225
Alignment explanation
Indices: 14518307--14518755 Score: 844
Period size: 225 Copynumber: 2.0 Consensus size: 225
14518297 ATAGAGTCCC
* *
14518307 TAATGAGTTAATGTGAAATCGTATTTTGATCCGATGCTAAATATTGAAAGATATGTTTATCTCGA
1 TAATGAGTTAATGTGAAATCGTATTTTGATCAGATGCTAAATATTGAAAGATATGTTTATCTCAA
*
14518372 GTTTAGGAACTAAATTGAATAAAATGCAAAATATGTTTGACTTTATATTTGAATGTGAATTGGAT
66 GTTTAGGAACTAAATTGAATAAAATGAAAAATATGTTTGACTTTATATTTGAATGTGAATTGGAT
* *
14518437 GAATTTTGATATTGTTCCATTGTTAATTATCAATTATAGATAAAGACGACATCGGGTTATCAAGA
131 GAATTCTGATATTGTTCCATTGTTAATTATCAATTATAGATAAAGACGACATCAGGTTATCAAGA
14518502 AGGAAGGGAAAAGCGAGAGTTGTAACACCT
196 AGGAAGGGAAAAGCGAGAGTTGTAACACCT
14518532 TAATGAGTTAATGTGAAATCGTATTTTGATCAGATGCTAAATATTGAAAGATATGTTTATCTCAA
1 TAATGAGTTAATGTGAAATCGTATTTTGATCAGATGCTAAATATTGAAAGATATGTTTATCTCAA
14518597 GTTTAGGAACTAAATTGAATAAAATGAAAAATATGTTTGACTTTATATTTGAATGTGAATTGGAT
66 GTTTAGGAACTAAATTGAATAAAATGAAAAATATGTTTGACTTTATATTTGAATGTGAATTGGAT
*
14518662 GAATTCTGATATTGTTCCATTTTTAATTATCAATTATAGATAAAGACGACATCAGGTTATCAAGA
131 GAATTCTGATATTGTTCCATTGTTAATTATCAATTATAGATAAAGACGACATCAGGTTATCAAGA
14518727 AGGAAGGGAAAAGCGAGAGTTGTAACACC
196 AGGAAGGGAAAAGCGAGAGTTGTAACACC
14518756 GTCAACTCGA
Statistics
Matches: 218, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
225 218 1.00
ACGTcount: A:0.37, C:0.09, G:0.19, T:0.35
Consensus pattern (225 bp):
TAATGAGTTAATGTGAAATCGTATTTTGATCAGATGCTAAATATTGAAAGATATGTTTATCTCAA
GTTTAGGAACTAAATTGAATAAAATGAAAAATATGTTTGACTTTATATTTGAATGTGAATTGGAT
GAATTCTGATATTGTTCCATTGTTAATTATCAATTATAGATAAAGACGACATCAGGTTATCAAGA
AGGAAGGGAAAAGCGAGAGTTGTAACACCT
Found at i:14519255 original size:161 final size:161
Alignment explanation
Indices: 14518986--14519307 Score: 581
Period size: 161 Copynumber: 2.0 Consensus size: 161
14518976 CAGACTCTCA
* **
14518986 GGACATAATCCTACAATATGCCAAAATCTAAAGATGTCCACTGTATGCATAATATTCCAGATCGT
1 GGACATAATCCTACAATATGCCAAAATCTAAAGATGTCCACTGTATGCATAATATCCCAGATCAC
* *
14519051 CGTTTCTATGGTGTACTACTGACTTGTCTCTCTAGGCGGTCTCATTCATACAGCATAACCTAAAA
66 CGTTTCTATGGTGTACAACTGACTTGTCTCTCCAGGCGGTCTCATTCATACAGCATAACCTAAAA
14519116 CATAAACAAAACATTTATAAGTTACATGAGC
131 CATAAACAAAACATTTATAAGTTACATGAGC
14519147 GGACATAATCCTACAATATGCCAAAATCTAAAGATGTCCACTGTATGCATAATATCCCAGATCAC
1 GGACATAATCCTACAATATGCCAAAATCTAAAGATGTCCACTGTATGCATAATATCCCAGATCAC
* *
14519212 CGTTTCTATGGTGTACAACTGACTTGTCTCTCCAGGTGGTCTCATTCATACAGCATAACCTGAAA
66 CGTTTCTATGGTGTACAACTGACTTGTCTCTCCAGGCGGTCTCATTCATACAGCATAACCTAAAA
14519277 CATAAACAAAACATTTATAAGTTACATGAGC
131 CATAAACAAAACATTTATAAGTTACATGAGC
14519308 TTAGTGAATT
Statistics
Matches: 154, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
161 154 1.00
ACGTcount: A:0.34, C:0.22, G:0.14, T:0.29
Consensus pattern (161 bp):
GGACATAATCCTACAATATGCCAAAATCTAAAGATGTCCACTGTATGCATAATATCCCAGATCAC
CGTTTCTATGGTGTACAACTGACTTGTCTCTCCAGGCGGTCTCATTCATACAGCATAACCTAAAA
CATAAACAAAACATTTATAAGTTACATGAGC
Found at i:14520069 original size:71 final size:71
Alignment explanation
Indices: 14519985--14520127 Score: 180
Period size: 71 Copynumber: 2.0 Consensus size: 71
14519975 CATAAATGTG
* * ** * *
14519985 ACATATATGATACGCCACATAAGCTTAGTAGAAGTACGCCACAA-GAACCAATATAATGCGTCAC
1 ACATATAGGATACGCCACATAAGCTTAGCAGAAAAACGCCACAATG-ACCAACAGAATGCGTCAC
14520049 AAAGGCC
65 AAAGGCC
* * *
14520056 ACATATAGGATACGCCACATAGGCTTAGCATAAAAACGTCACAATGACCAACAGAATGCGTCACA
1 ACATATAGGATACGCCACATAAGCTTAGCAGAAAAACGCCACAATGACCAACAGAATGCGTCACA
*
14520121 AATGCC
66 AAGGCC
14520127 A
1 A
14520128 AACATAATTT
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
71 60 0.98
72 1 0.02
ACGTcount: A:0.41, C:0.24, G:0.17, T:0.17
Consensus pattern (71 bp):
ACATATAGGATACGCCACATAAGCTTAGCAGAAAAACGCCACAATGACCAACAGAATGCGTCACA
AAGGCC
Found at i:14520280 original size:117 final size:117
Alignment explanation
Indices: 14520037--14520289 Score: 305
Period size: 117 Copynumber: 2.1 Consensus size: 117
14520027 AAGAACCAAT
* ** *
14520037 ATAATGCGTCACAAAGGCCACATATAGGATACGCCACATAGGCTTAGCATAAAAACGTCACAATG
1 ATAATGC--CACAAAGGCCACATATAGGATACACCACATAGGCTTAGCATAAAAACACCACAAGG
* * * *
14520102 ACCAACAGAATGCGTCACAAATGCCAAACATAATTTACCATAAAGGTCAAACAG
64 ACCAACAGAATGCGCCACAAAGGCCAAACAAAATTCACCATAAAGGTCAAACAG
* *
14520156 A-ATATGCCACAAAGGCGACATATAGGATACACCACATAGGCTTAGCA-AAAGTACACCACAAGG
1 ATA-ATGCCACAAAGGCCACATATAGGATACACCACATAGGCTTAGCATAAA-AACACCACAAGG
* * * * *
14520219 GCCAATAGAATGTGCCACAAAGGCCAAACAAAATTCACCATAAAGGT-ATTACTG
64 ACCAACAGAATGCGCCACAAAGGCCAAACAAAATTCACCATAAAGGTCA-AACAG
14520273 ATAATGCCACAAAGGCC
1 ATAATGCCACAAAGGCC
14520290 CTATTTGGAT
Statistics
Matches: 114, Mismatches: 16, Indels: 10
0.81 0.11 0.07
Matches are distributed among these distances:
116 4 0.04
117 103 0.90
118 2 0.02
119 5 0.04
ACGTcount: A:0.43, C:0.24, G:0.17, T:0.17
Consensus pattern (117 bp):
ATAATGCCACAAAGGCCACATATAGGATACACCACATAGGCTTAGCATAAAAACACCACAAGGAC
CAACAGAATGCGCCACAAAGGCCAAACAAAATTCACCATAAAGGTCAAACAG
Found at i:14520306 original size:117 final size:117
Alignment explanation
Indices: 14520046--14520265 Score: 307
Period size: 117 Copynumber: 1.9 Consensus size: 117
14520036 TATAATGCGT
* * ** *
14520046 CACAAAGGCCACATATAGGATACGCCACATAGGCTTAGCATAAAAACGTCACAATGACCAACAGA
1 CACAAAGGCGACATATAGGATACACCACATAGGCTTAGCATAAAAACACCACAAGGACCAACAGA
* * * *
14520111 ATGCGTCACAAATGCCAAACATAATTTACCATAAAGGTCAAACAGAATATGC
66 ATGCGCCACAAAGGCCAAACAAAATTCACCATAAAGGTCAAACAGAATATGC
* * *
14520163 CACAAAGGCGACATATAGGATACACCACATAGGCTTAGCA-AAAGTACACCACAAGGGCCAATAG
1 CACAAAGGCGACATATAGGATACACCACATAGGCTTAGCATAAA-AACACCACAAGGACCAACAG
*
14520227 AATGTGCCACAAAGGCCAAACAAAATTCACCATAAAGGT
65 AATGCGCCACAAAGGCCAAACAAAATTCACCATAAAGGT
14520266 ATTACTGATA
Statistics
Matches: 89, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
116 3 0.03
117 86 0.97
ACGTcount: A:0.44, C:0.24, G:0.17, T:0.15
Consensus pattern (117 bp):
CACAAAGGCGACATATAGGATACACCACATAGGCTTAGCATAAAAACACCACAAGGACCAACAGA
ATGCGCCACAAAGGCCAAACAAAATTCACCATAAAGGTCAAACAGAATATGC
Found at i:14524232 original size:19 final size:17
Alignment explanation
Indices: 14524225--14524382 Score: 74
Period size: 17 Copynumber: 8.7 Consensus size: 17
14524215 ATTTTAATAG
14524225 TTTAATATTAAATTAAA
1 TTTAATATTAAATTAAA
*
14524242 TTTAATATTAAAGTAATTA
1 TTTAATATTAAATTAA--A
14524261 TTTTAATATTAAATTTAATA
1 -TTTAATATTAAA-TTAA-A
*
14524281 TTT-ATCTTATAGA-TAAA
1 TTTAATATTA-A-ATTAAA
*
14524298 TATTATATTATTTTAA-TAAGA
1 T-TTA-A-TA-TTAAATTAA-A
*
14524319 TTTAATATATAAAATTTAA
1 TTTAATAT-T-AAATTAAA
* *
14524338 TTTAATATT-TATCTTAA
1 TTTAATATTAAAT-TAAA
* *
14524355 -TAAATATTAGATTAAA
1 TTTAATATTAAATTAAA
14524371 TTTAATATTAAA
1 TTTAATATTAAA
14524383 GTGATTAAGT
Statistics
Matches: 110, Mismatches: 13, Indels: 36
0.69 0.08 0.23
Matches are distributed among these distances:
16 12 0.11
17 33 0.30
18 14 0.13
19 17 0.15
20 25 0.23
21 7 0.06
22 2 0.02
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.49
Consensus pattern (17 bp):
TTTAATATTAAATTAAA
Found at i:14524253 original size:12 final size:12
Alignment explanation
Indices: 14524208--14524282 Score: 54
Period size: 12 Copynumber: 6.6 Consensus size: 12
14524198 ATTCTAAAAA
*
14524208 TAATATT-ATTT
1 TAATATTAAATT
*
14524219 TAATAGTTTAATAT
1 TAATA-TTAAAT-T
14524233 TAA-ATTAAATT
1 TAATATTAAATT
*
14524244 TAATATTAAA-G
1 TAATATTAAATT
*
14524255 T-A-ATT-ATTT
1 TAATATTAAATT
14524264 TAATATTAAATT
1 TAATATTAAATT
14524276 TAATATT
1 TAATATT
14524283 TATCTTATAG
Statistics
Matches: 50, Mismatches: 6, Indels: 15
0.70 0.08 0.21
Matches are distributed among these distances:
8 1 0.02
9 4 0.08
10 2 0.04
11 13 0.26
12 23 0.46
13 3 0.06
14 4 0.08
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (12 bp):
TAATATTAAATT
Found at i:14524263 original size:45 final size:46
Alignment explanation
Indices: 14524210--14524346 Score: 120
Period size: 45 Copynumber: 2.9 Consensus size: 46
14524200 TCTAAAAATA
14524210 ATATTATTTTAATAGTTTAATATTAAATTAAATTTAATATTAA-AGT
1 ATATTATTTTAATAGTTTAATATTAAATT-AATTTAATATTAATAGT
* * * * *
14524256 A-ATTATTTTAATA-TTAAAT-TTAATATTTATCTTATAGATAAATATT
1 ATATTATTTTAATAGTTTAATATTAA-ATTAAT-TTA-ATATTAATAGT
14524302 ATATTATTTTAATAAGATTTAATATATAAAATTTAATTTAATATT
1 ATATTATTTTAAT-AG-TTTAATAT-T-AAA-TTAATTTAATATT
14524347 TATCTTAATA
Statistics
Matches: 70, Mismatches: 9, Indels: 19
0.71 0.09 0.19
Matches are distributed among these distances:
43 6 0.09
44 11 0.16
45 17 0.24
46 4 0.06
47 11 0.16
48 1 0.01
50 5 0.07
51 4 0.06
52 5 0.07
53 6 0.09
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (46 bp):
ATATTATTTTAATAGTTTAATATTAAATTAATTTAATATTAATAGT
Found at i:14524282 original size:20 final size:19
Alignment explanation
Indices: 14524208--14524283 Score: 84
Period size: 20 Copynumber: 4.0 Consensus size: 19
14524198 ATTCTAAAAA
** *
14524208 TAATATTATTTTAATAGTT
1 TAATATTAAATTAATATTT
14524227 TAATATTAAATTAA-A-TT
1 TAATATTAAATTAATATTT
*
14524244 TAATATTAAAGTAATTATTT
1 TAATATTAAATTAA-TATTT
14524264 TAATATTAAATTTAATATTT
1 TAATATTAAA-TTAATATTT
14524284 ATCTTATAGA
Statistics
Matches: 49, Mismatches: 4, Indels: 7
0.82 0.07 0.12
Matches are distributed among these distances:
17 15 0.31
18 1 0.02
19 13 0.27
20 17 0.35
21 3 0.06
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (19 bp):
TAATATTAAATTAATATTT
Found at i:14525214 original size:16 final size:16
Alignment explanation
Indices: 14525195--14525234 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
14525185 TTCCACGTTA
*
14525195 GGTTTTTGGATTTTAG
1 GGTTTTGGGATTTTAG
* *
14525211 GGTTTAGGGCTTTTAG
1 GGTTTTGGGATTTTAG
14525227 GGTTTTGG
1 GGTTTTGG
14525235 AGAAAAAAGT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.10, C:0.03, G:0.38, T:0.50
Consensus pattern (16 bp):
GGTTTTGGGATTTTAG
Found at i:14525691 original size:124 final size:124
Alignment explanation
Indices: 14525280--14525725 Score: 739
Period size: 125 Copynumber: 3.6 Consensus size: 124
14525270 ACGCACTTTC
* * * * *
14525280 GCTTCTAGCAAGATGCTGTTTGATAAGAATTTGTGAAATCACGCCCTCGTGGACACGCTTTTGCT
1 GCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCT
*
14525345 ACAGTAGGTCCTGAAAGAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAATT
66 ACAGTAGGTCCTGGAA-AAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAATT
14525405 GCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCT
1 GCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCT
* * * *
14525470 ATAGTAGGTCCTGGAAAAAATAATTTTGACTTGACGTTTTTGAGTAAATAGTATAAAATT
66 ACAGTAGGTCCTGG-AAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAATT
* *
14525530 ACTTCTAGCAGGATGCTATTTGAGAAGAATTTATGAAATCGCGCCCTCGTGGACGCGCTTTTGCT
1 GCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCT
*
14525595 ACAGTAGGTCCTGGAAAAATAATTTCGACTTGATGTTTCTGAGCAAATAGTATAAAATT
66 ACAGTAGGTCCTGGAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAATT
* *
14525654 GCTTCTAGCATGATGCTATTTGAGAAGAATTTGTGAAATTGCGCCCTCGTGGACGCGCTTTTGCT
1 GCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCT
14525719 ACAGTAG
66 ACAGTAG
14525726 CATGTTTGGG
Statistics
Matches: 299, Mismatches: 21, Indels: 3
0.93 0.07 0.01
Matches are distributed among these distances:
124 109 0.36
125 188 0.63
126 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (124 bp):
GCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCT
ACAGTAGGTCCTGGAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAATT
Found at i:14528930 original size:114 final size:114
Alignment explanation
Indices: 14528729--14529113 Score: 734
Period size: 114 Copynumber: 3.4 Consensus size: 114
14528719 AAATTATATT
*
14528729 TGTAAAATTATTAATTGATAAATTGTATTAATGGTTAGTAAAATTATCAAATTATATCAAATTAT
1 TGTAAAATTATTAACTGAT-AATTGTATTAATGGTTAGTAAAATTATCAAATTATATCAAATTAT
14528794 TAATTGTTAGTATCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAA
65 TAATTGTTAGTATCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAA
14528844 TGTAAAATTATTAACTGATAATTGTATTAATGGTTAGTAAAATTATCAAATTATATCAAATTATT
1 TGTAAAATTATTAACTGATAATTGTATTAATGGTTAGTAAAATTATCAAATTATATCAAATTATT
14528909 AATTGTTAGTATCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAA
66 AATTGTTAGTATCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAA
14528958 TGTAAAATTATTAACTGATAATTGTATTAATGGTTAGTAAAATTATCAAATTATATCAAATTATT
1 TGTAAAATTATTAACTGATAATTGTATTAATGGTTAGTAAAATTATCAAATTATATCAAATTATT
* *
14529023 AATTGTTAGTACCAGTCAAAATATTTTTCCAAATCTAACATTATGTGAA
66 AATTGTTAGTATCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAA
14529072 TGTAAAATTATTAACTGATAATTGTATTAATGGTTAGTAAAA
1 TGTAAAATTATTAACTGATAATTGTATTAATGGTTAGTAAAA
14529114 ATCTTAAGGT
Statistics
Matches: 267, Mismatches: 3, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
114 249 0.93
115 18 0.07
ACGTcount: A:0.42, C:0.08, G:0.10, T:0.41
Consensus pattern (114 bp):
TGTAAAATTATTAACTGATAATTGTATTAATGGTTAGTAAAATTATCAAATTATATCAAATTATT
AATTGTTAGTATCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAA
Found at i:14529163 original size:21 final size:21
Alignment explanation
Indices: 14529121--14529711 Score: 553
Period size: 21 Copynumber: 27.2 Consensus size: 21
14529111 AAAATCTTAA
*
14529121 GGTTTTTAAGTTAAGGTTTTAG
1 GGTTTTTAAGTTAAGG-GTTAG
14529143 GGTTTTTAAGTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGGTTAG
* *
14529164 GGTTATTAAGTTAAGGTTTAG
1 GGTTTTTAAGTTAAGGGTTAG
* *
14529185 GGTTTTTAATTTAAGGGTCAG
1 GGTTTTTAAGTTAAGGGTTAG
* * * *
14529206 GATTTTTAATTTAAGGTTTAT
1 GGTTTTTAAGTTAAGGGTTAG
* *
14529227 GGTTTTTAATTTAATGGTTAGGG
1 GGTTTTTAAGTTAAGGGTTA--G
* *
14529250 TTAGGTTTTTAAGTTAATGGTTTAT
1 ---GGTTTTTAAGTTAA-GGGTTAG
*
14529275 GGTTTCTAAGTTAAGGGTTTAG
1 GGTTTTTAAGTTAAGGG-TTAG
* * *
14529297 GGTTATTAATTTAAGGGTGAG
1 GGTTTTTAAGTTAAGGGTTAG
* * *
14529318 GGTTTTTAATTTAATGGTTTAA
1 GGTTTTTAAGTTAA-GGGTTAG
*
14529340 GGTTTTTAAGTTAAGGTTTAG
1 GGTTTTTAAGTTAAGGGTTAG
*
14529361 GGTTTTTAAATTAAGGGTTA-
1 GGTTTTTAAGTTAAGGGTTAG
14529381 GGTTTTTAAGTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGGTTAG
**
14529402 GGTTTTTAAGTTAAAGCTTTAG
1 GGTTTTTAAGTT-AAGGGTTAG
*
14529424 GGTATAATTGT-A-TTAATGGTTTAG
1 GGT-T--TT-TAAGTTAA-GGGTTAG
*
14529448 GGTTTTTAATTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGGTTAG
14529469 GGTTTTTAA-TTAAGGGTTAG
1 GGTTTTTAAGTTAAGGGTTAG
14529489 GGTTTTTAAGTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGGTTAG
14529510 GG-TTTTAAGTTAAGGGTTTAG
1 GGTTTTTAAGTTAAGGG-TTAG
* *
14529531 GGTTTTTAATTTAAGGTTTAG
1 GGTTTTTAAGTTAAGGGTTAG
* * *
14529552 GGTTTTAAATTTAATGGTTAGGGAGCG
1 GGTTTTTAAGTTAAGGGTT----A--G
* *
14529579 GGTTTTTAAGTTGAAGGTTTAT
1 GGTTTTTAAGTT-AAGGGTTAG
14529601 GGTTTTTAAGTTAAGGGTTTAG
1 GGTTTTTAAGTTAAGGG-TTAG
* * * *
14529623 GGTTATTAATTTTAGAGTTAG
1 GGTTTTTAAGTTAAGGGTTAG
* *
14529644 GGTTATTAAGTTAAGTGTTAG
1 GGTTTTTAAGTTAAGGGTTAG
14529665 GGTTTTTAAGTTAAGGGTTTAG
1 GGTTTTTAAGTTAAGGG-TTAG
* *
14529687 AGTTTTTAATTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGGTTAG
14529708 GGTT
1 GGTT
14529712 AGTGTTTTTT
Statistics
Matches: 477, Mismatches: 63, Indels: 59
0.80 0.11 0.10
Matches are distributed among these distances:
20 54 0.11
21 233 0.49
22 136 0.29
23 4 0.01
24 12 0.03
25 4 0.01
26 14 0.03
27 15 0.03
28 5 0.01
ACGTcount: A:0.25, C:0.01, G:0.28, T:0.46
Consensus pattern (21 bp):
GGTTTTTAAGTTAAGGGTTAG
Found at i:14530986 original size:7 final size:7
Alignment explanation
Indices: 14530976--14531001 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
14530966 TTATATACAT
14530976 AATACTA
1 AATACTA
14530983 AATACTA
1 AATACTA
14530990 AATACTA
1 AATACTA
14530997 AATAC
1 AATAC
14531002 CAATCGACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:14532209 original size:11 final size:11
Alignment explanation
Indices: 14532195--14532248 Score: 58
Period size: 11 Copynumber: 4.9 Consensus size: 11
14532185 TTAAATATGG
14532195 ATTTGAGAGAA
1 ATTTGAGAGAA
*
14532206 ATTTG-GAAGGA
1 ATTTGAG-AGAA
14532217 ATTTGAGAGAA
1 ATTTGAGAGAA
*
14532228 AATTGAGAGGAA
1 ATTTGAGA-GAA
14532240 A-TTGAGAGA
1 ATTTGAGAGA
14532249 GGATTAGTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
10 3 0.08
11 29 0.78
12 5 0.14
ACGTcount: A:0.44, C:0.00, G:0.31, T:0.24
Consensus pattern (11 bp):
ATTTGAGAGAA
Found at i:14532223 original size:22 final size:22
Alignment explanation
Indices: 14532195--14532248 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
14532185 TTAAATATGG
*
14532195 ATTTGAGAGAAATTTG-GAAGGA
1 ATTTGAGAGAAAATTGAG-AGGA
14532217 ATTTGAGAGAAAATTGAGAGGA
1 ATTTGAGAGAAAATTGAGAGGA
*
14532239 AATTGAGAGA
1 ATTTGAGAGA
14532249 GGATTAGTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 28 0.97
23 1 0.03
ACGTcount: A:0.44, C:0.00, G:0.31, T:0.24
Consensus pattern (22 bp):
ATTTGAGAGAAAATTGAGAGGA
Found at i:14532901 original size:23 final size:20
Alignment explanation
Indices: 14532875--14532926 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
14532865 CCGACCCATT
*
14532875 TTTTAATAAACACAAAAAATTTA
1 TTTTAA-AAACA-AAAAAA-GTA
*
14532898 TTTTAAAAATAAAAAAAGTA
1 TTTTAAAAACAAAAAAAGTA
14532918 TTTTAAAAA
1 TTTTAAAAA
14532927 TATTTTAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 11 0.41
21 6 0.22
22 4 0.15
23 6 0.22
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.35
Consensus pattern (20 bp):
TTTTAAAAACAAAAAAAGTA
Found at i:14533800 original size:3 final size:3
Alignment explanation
Indices: 14533792--14533823 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
14533782 TTCCACACCA
14533792 TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TC
1 TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TC
14533824 TTCGAATTAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.00, C:0.66, G:0.00, T:0.34
Consensus pattern (3 bp):
TCC
Found at i:14541139 original size:32 final size:32
Alignment explanation
Indices: 14541101--14541161 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
14541091 GTGGTTTTAG
*
14541101 TAATTGCTTTGATTTATTTTTTGCTCAAATAA
1 TAATTGCTTTGATTCATTTTTTGCTCAAATAA
14541133 TAATTGCTTTGATTCATTTTTTGCTCAAA
1 TAATTGCTTTGATTCATTTTTTGCTCAAA
14541162 ATGAAGAGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.26, C:0.11, G:0.10, T:0.52
Consensus pattern (32 bp):
TAATTGCTTTGATTCATTTTTTGCTCAAATAA
Found at i:14542245 original size:6 final size:6
Alignment explanation
Indices: 14542234--14542268 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
14542224 GTTCTCCCCA
14542234 CCCTCT CCCTCT CCCTCT CCCTCT CCCTCT CCCTC
1 CCCTCT CCCTCT CCCTCT CCCTCT CCCTCT CCCTC
14542269 CCAACATCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.00, C:0.69, G:0.00, T:0.31
Consensus pattern (6 bp):
CCCTCT
Found at i:14545943 original size:120 final size:120
Alignment explanation
Indices: 14545805--14546097 Score: 500
Period size: 120 Copynumber: 2.4 Consensus size: 120
14545795 AATTATTTTA
* * * *
14545805 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTT-TCTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT--AATTTATATT
*
14545868 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
64 TTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
14545925 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTACTTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
14545990 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
14546045 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
14546098 TAAATATGAT
Statistics
Matches: 165, Mismatches: 6, Indels: 4
0.94 0.03 0.02
Matches are distributed among these distances:
119 4 0.02
120 159 0.96
121 2 0.01
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:14545965 original size:15 final size:15
Alignment explanation
Indices: 14545930--14545971 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
14545920 TTAAGAATTT
*
14545930 TATTAAATTAT-ATA
1 TATTTAATTATAATA
14545944 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
14545958 TATTTAATAATAAT
1 TATTTAATTATAAT
14545972 TATGTTACTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:14546080 original size:16 final size:16
Alignment explanation
Indices: 14546059--14546100 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
14546049 TTATTAAATT
*
14546059 ATATATTTTAATTATA
1 ATATATTTTAATAATA
14546075 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
14546090 AT-TATGTTTAA
1 ATATAT-TTTAA
14546101 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:14546085 original size:15 final size:15
Alignment explanation
Indices: 14546050--14546091 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
14546040 TTAAGAATTT
*
14546050 TATTAAATTAT-ATA
1 TATTTAATTATAATA
14546064 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
14546078 TATTTAATAATAAT
1 TATTTAATTATAAT
14546092 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:14546241 original size:157 final size:157
Alignment explanation
Indices: 14546034--14546350 Score: 564
Period size: 157 Copynumber: 2.0 Consensus size: 157
14546024 ATAAGAATAT
*
14546034 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
* * *
14546099 AAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
14546164 TAATAATTTACCAAAACAAATTTATGC
131 TAATAATTTACCAAAACAAATTTATGC
14546191 TAATTA-TAAGAATTTTATTAAATTATATATTATTAATTAAAATATATTTAATAATAATTATGTT
1 TAATTATTAAGAATTTTATTAAATTATATATT-TTAATTAAAATATATTTAATAATAATTATGTT
14546255 TAAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACA
65 TAAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACA
* *
14546320 ATAATCATTTACCAAAACAATTTTATGC
130 ATAATAATTTACCAAAACAAATTTATGC
14546348 TAA
1 TAA
14546351 GGGTATTCTA
Statistics
Matches: 153, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
156 25 0.16
157 128 0.84
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (157 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
AAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
TAATAATTTACCAAAACAAATTTATGC
Found at i:14546467 original size:44 final size:45
Alignment explanation
Indices: 14546402--14546492 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
14546392 ACCTCTATTC
* * *
14546402 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
14546446 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
14546491 CA
1 CA
14546493 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:14546494 original size:16 final size:16
Alignment explanation
Indices: 14546473--14546541 Score: 129
Period size: 16 Copynumber: 4.2 Consensus size: 16
14546463 GATTAGCTAT
14546473 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
14546489 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
14546506 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
14546522 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
14546538 TACA
1 TACA
14546542 GCGAACCAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
16 36 0.69
17 16 0.31
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:14546515 original size:33 final size:32
Alignment explanation
Indices: 14546473--14546541 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 32
14546463 GATTAGCTAT
14546473 TACACCTCTAATCCAATACACCTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAAT-CCAA
14546506 TACACCTCTAATCCAATACACCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
14546538 TACA
1 TACA
14546542 GCGAACCAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 8 0.22
33 28 0.78
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:14549339 original size:32 final size:32
Alignment explanation
Indices: 14549277--14549337 Score: 81
Period size: 31 Copynumber: 1.9 Consensus size: 32
14549267 ATATTTATAT
* *
14549277 AAATTTATAAACTTTTAATTCTTAATTTTTAA
1 AAATTTATAAACTTATAATTCATAATTTTTAA
14549309 AAATTTAT-AACTTATATATT-ATAATTTTT
1 AAATTTATAAACTTATA-ATTCATAATTTTT
14549338 TATATTTTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
31 15 0.58
32 11 0.42
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (32 bp):
AAATTTATAAACTTATAATTCATAATTTTTAA
Found at i:14561110 original size:13 final size:13
Alignment explanation
Indices: 14561092--14561122 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
14561082 GCCGTGTGTC
14561092 ACACACGGTTGAG
1 ACACACGGTTGAG
14561105 ACACACGGTTGAG
1 ACACACGGTTGAG
14561118 ACACA
1 ACACA
14561123 TGCCCGTCTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.35, C:0.26, G:0.26, T:0.13
Consensus pattern (13 bp):
ACACACGGTTGAG
Found at i:14562086 original size:25 final size:26
Alignment explanation
Indices: 14562050--14562215 Score: 163
Period size: 24 Copynumber: 6.7 Consensus size: 26
14562040 ATTCAAGAAT
14562050 GCTCATGTGAG-CATATAATCGGGAA
1 GCTCATGTGAGCCATATAATCGGGAA
* *
14562075 GCTC-TTTCGAGCCATATTAT-GGGAA
1 GCTCATGT-GAGCCATATAATCGGGAA
14562100 GCTCATGTGAGCCATATAA-CGGGAA
1 GCTCATGTGAGCCATATAATCGGGAA
* ***
14562125 GCTTATAACAGCC--ATAATCGGGAA
1 GCTCATGTGAGCCATATAATCGGGAA
**
14562149 GCTCATAAGAGCC--ATAATCGGGAA
1 GCTCATGTGAGCCATATAATCGGGAA
14562173 GCTCATGTGAGCCA-AT-ATCGGGAA
1 GCTCATGTGAGCCATATAATCGGGAA
**
14562197 GCTCATAAGAGCCATATAA
1 GCTCATGTGAGCCATATAA
14562216 CAGAATGCTC
Statistics
Matches: 119, Mismatches: 14, Indels: 15
0.80 0.09 0.10
Matches are distributed among these distances:
23 4 0.03
24 61 0.51
25 44 0.37
26 10 0.08
ACGTcount: A:0.33, C:0.20, G:0.25, T:0.22
Consensus pattern (26 bp):
GCTCATGTGAGCCATATAATCGGGAA
Found at i:14562151 original size:24 final size:25
Alignment explanation
Indices: 14562061--14562307 Score: 202
Period size: 25 Copynumber: 10.0 Consensus size: 25
14562051 CTCATGTGAG
* **
14562061 CATATAATCGGGAAGCTCTTTCGAGC
1 CATAT-ATCGGGAAGCTCATAAGAGC
**
14562087 CATATTAT-GGGAAGCTCATGTGAGC
1 CATA-TATCGGGAAGCTCATAAGAGC
* * *
14562112 CATATAACGGGAAGCTTATAACAGC
1 CATATATCGGGAAGCTCATAAGAGC
14562137 CATA-ATCGGGAAGCTCATAAGAGC
1 CATATATCGGGAAGCTCATAAGAGC
**
14562161 CATA-ATCGGGAAGCTCATGTGAGC
1 CATATATCGGGAAGCTCATAAGAGC
14562185 CA-ATATCGGGAAGCTCATAAGAGC
1 CATATATCGGGAAGCTCATAAGAGC
* *
14562209 CATATAAC-AGAATGCTCATAAGAGC
1 CATATATCGGGAA-GCTCATAAGAGC
* * * * * *
14562234 TAAATAACGGGAAGCTCGTGAGACC
1 CATATATCGGGAAGCTCATAAGAGC
* * *
14562259 CAAATATCAGGAAGTTCA-AGAGAGC
1 CATATATCGGGAAGCTCATA-AGAGC
* *
14562284 CA-ATATCGAGATGCTCATAAGAGC
1 CATATATCGGGAAGCTCATAAGAGC
14562308 TAATAACGGG
Statistics
Matches: 179, Mismatches: 34, Indels: 18
0.77 0.15 0.08
Matches are distributed among these distances:
23 1 0.01
24 82 0.46
25 86 0.48
26 9 0.05
27 1 0.01
ACGTcount: A:0.36, C:0.20, G:0.24, T:0.20
Consensus pattern (25 bp):
CATATATCGGGAAGCTCATAAGAGC
Found at i:14562323 original size:24 final size:24
Alignment explanation
Indices: 14562095--14562323 Score: 178
Period size: 24 Copynumber: 9.4 Consensus size: 24
14562085 GCCATATTAT
**
14562095 GGGAAGCTCATGTGAGCCATATAAC
1 GGGAAGCTCATAAGAGCCA-ATAAC
* *
14562120 GGGAAGCTTATAACAGCC-ATAATC
1 GGGAAGCTCATAAGAGCCAATAA-C
14562144 GGGAAGCTCATAAGAGCC-ATAATC
1 GGGAAGCTCATAAGAGCCAATAA-C
** *
14562168 GGGAAGCTCATGTGAGCCAATATC
1 GGGAAGCTCATAAGAGCCAATAAC
14562192 GGGAAGCTCATAAGAGCCATATAAC
1 GGGAAGCTCATAAGAGCCA-ATAAC
* *
14562217 -AGAATGCTCATAAGAGCTAAATAAC
1 GGGAA-GCTCATAAGAGC-CAATAAC
* * * *
14562242 GGGAAGCTCGTGAGACCCAAATATC
1 GGGAAGCTCATAAGAGCC-AATAAC
* * *
14562267 AGGAAGTTCA-AGAGAGCCAATATC
1 GGGAAGCTCATA-AGAGCCAATAAC
* * *
14562291 GAGATGCTCATAAGAGCTAATAAC
1 GGGAAGCTCATAAGAGCCAATAAC
*
14562315 GGGACGCTC
1 GGGAAGCTC
14562324 TTGCGAGCTG
Statistics
Matches: 162, Mismatches: 33, Indels: 19
0.76 0.15 0.09
Matches are distributed among these distances:
23 4 0.02
24 89 0.55
25 65 0.40
26 4 0.02
ACGTcount: A:0.37, C:0.20, G:0.25, T:0.18
Consensus pattern (24 bp):
GGGAAGCTCATAAGAGCCAATAAC
Found at i:14567322 original size:15 final size:16
Alignment explanation
Indices: 14567299--14567337 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
14567289 TTATGGGTAC
*
14567299 AAAATAATAAGAT-TT
1 AAAAGAATAAGATATT
14567314 AAAAGAATAAGATATT
1 AAAAGAATAAGATATT
14567330 -AAAGAATA
1 AAAAGAATA
14567338 TATCATTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 20 0.91
16 2 0.09
ACGTcount: A:0.64, C:0.00, G:0.10, T:0.26
Consensus pattern (16 bp):
AAAAGAATAAGATATT
Found at i:14569065 original size:29 final size:29
Alignment explanation
Indices: 14569010--14569066 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
14569000 GTATTTTCAT
* * *
14569010 AAAATGTTTAATGTGATACTTATACTTTA
1 AAAATATTTAATATGATACTGATACTTTA
14569039 AAAATATTTAATATGATATCTGA-ACTTT
1 AAAATATTTAATATGATA-CTGATACTTT
14569067 CAATATTTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 21 0.88
30 3 0.12
ACGTcount: A:0.40, C:0.07, G:0.09, T:0.44
Consensus pattern (29 bp):
AAAATATTTAATATGATACTGATACTTTA
Found at i:14574470 original size:38 final size:38
Alignment explanation
Indices: 14574422--14574500 Score: 124
Period size: 38 Copynumber: 2.1 Consensus size: 38
14574412 TCGTGGTGTT
*
14574422 GGGTAAGGTTTAAGT-TTCATTGTTGGATTTGTCTCTTG
1 GGGTAAGGTTTAAGTCCT-ATTGTTGGATTTGTCTCTTG
*
14574460 GGGTAAGGTTTAAGTCCTATTGTTGGATTTGTCTTTTG
1 GGGTAAGGTTTAAGTCCTATTGTTGGATTTGTCTCTTG
14574498 GGG
1 GGG
14574501 GACGGTTGGT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
38 37 0.97
39 1 0.03
ACGTcount: A:0.15, C:0.08, G:0.32, T:0.46
Consensus pattern (38 bp):
GGGTAAGGTTTAAGTCCTATTGTTGGATTTGTCTCTTG
Found at i:14576946 original size:39 final size:37
Alignment explanation
Indices: 14576903--14576988 Score: 88
Period size: 39 Copynumber: 2.3 Consensus size: 37
14576893 TTTGAAAAAA
*
14576903 AATATGTATA-CATGTAAAA-TATATTAAAAATAATTAAAT
1 AATATGTATATCAT-CAAAATTA-ATTAAAAA-AA-TAAAT
* *
14576942 AATATCTATATTATCAAAATTAATTAAAAAAATAAAT
1 AATATGTATATCATCAAAATTAATTAAAAAAATAAAT
14576979 -ATATGTATAT
1 AATATGTATAT
14576989 ATATAAATAT
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
36 9 0.22
37 5 0.12
38 2 0.05
39 21 0.51
40 4 0.10
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.37
Consensus pattern (37 bp):
AATATGTATATCATCAAAATTAATTAAAAAAATAAAT
Found at i:14577055 original size:21 final size:22
Alignment explanation
Indices: 14577015--14577057 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
14577005 AACATTAGTT
14577015 GAAAAAAATAAATATGTACATAA
1 GAAAAAAATAAATA-GTACATAA
*
14577038 GAAAACAATAAATA-TACATA
1 GAAAAAAATAAATAGTACATA
14577058 TATATATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
23 13 0.68
ACGTcount: A:0.65, C:0.07, G:0.07, T:0.21
Consensus pattern (22 bp):
GAAAAAAATAAATAGTACATAA
Found at i:14578867 original size:44 final size:44
Alignment explanation
Indices: 14578810--14578926 Score: 148
Period size: 44 Copynumber: 2.7 Consensus size: 44
14578800 ATGTGATCTA
* * *
14578810 CTCCACTGCAACTTCAGAGAGCTAAGATCT-GTGGTTTTAATCC-G
1 CTCCACTGCAACTTCAGGGAGATAAGAT-TAGTAGTTTTAA-CCTG
* *
14578854 CTCCACTGCAACTTCAGGGAGATAGGATTATTAGTTTTAACCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTAGTAGTTTTAACCTG
*
14578898 CTCCATTGCAACTTCAGGGAGATAAGATT
1 CTCCACTGCAACTTCAGGGAGATAAGATT
14578927 CGCCATCTTC
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
43 3 0.05
44 61 0.95
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (44 bp):
CTCCACTGCAACTTCAGGGAGATAAGATTAGTAGTTTTAACCTG
Found at i:14579011 original size:44 final size:46
Alignment explanation
Indices: 14578895--14579014 Score: 124
Period size: 44 Copynumber: 2.7 Consensus size: 46
14578885 TAGTTTTAAC
* *
14578895 CTGCTCCATTGCAACTTCAGGGAGATAAGA-TTCGCCATCTTCAGT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTCGCCATATTCAGT
* * ** *
14578940 CTGCCCCACTACAACTTCAGAGG-GATAAGACTT-G-TTTATTCGGT
1 CTGCTCCACTGCAACTTCAG-GGAGATAAGACTTCGCCATATTCAGT
14578984 CTGCTCCACTGCAACCTT-AGGGAGATAAGAC
1 CTGCTCCACTGCAA-CTTCAGGGAGATAAGAC
14579015 CTAATATCTT
Statistics
Matches: 62, Mismatches: 9, Indels: 9
0.77 0.11 0.11
Matches are distributed among these distances:
43 2 0.03
44 28 0.45
45 28 0.45
46 4 0.06
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.27
Consensus pattern (46 bp):
CTGCTCCACTGCAACTTCAGGGAGATAAGACTTCGCCATATTCAGT
Found at i:14579353 original size:267 final size:267
Alignment explanation
Indices: 14579022--14579834 Score: 1232
Period size: 267 Copynumber: 3.0 Consensus size: 267
14579012 GACCTAATAT
* * * * * *
14579022 CTTCAATCTTTTTAATTGCAATGTGGGGGAAACAAGATTCGCTGTCGTAGCTTTAATTTGTTCCA
1 CTTCAATCTTTTAAATTGCAATGTTGGGGAAACGAGATTCGCCGTCGTAGCTTCAATCTGTTCCA
* * * * * **
14579087 CTATACCACCAAAGAAGTAAGATTCGCCGTTGCGGCTTTAATCTGCTCCACTGTAACACCAAAGA
66 CTACAACGCCAGAGAAGTAAGATTCACCGTTGCGGCTTTAATCTGCTCCACTGTAATGCCAAAGA
* * * * *
14579152 GATAGGATTCGCTGCCCACAACTTCAACCCGCTCCACTTTAGCTAATCCAAGACTTAACGCCAAG
131 GATAGGATTCGCTGCCCACAGCTTTAATCCGCTCCACTTCAGCTAATCCAAGCCTTAACGCCAAG
* * * *
14579217 GAGATAAGATTCGCCGTTGTGGCTTCAATCTACTCTGCTACAATGCCAGGGAAATAATATTCGTC
196 GAGATAAGATTCGCCGTCGTGGCTTCAATCTGCTCTGCTACAACGCCAGGGAAATAATATTCGCC
14579282 GTTGCGG
261 GTTGCGG
14579289 CTTCAATCTTTTAAATTGCAATGTTGGGGAAACGAGATTCGCCGTCGTAGCTTCAATCTGTTCCA
1 CTTCAATCTTTTAAATTGCAATGTTGGGGAAACGAGATTCGCCGTCGTAGCTTCAATCTGTTCCA
* *
14579354 CTACAACGCCAGTGAAGTAAGATTTACCGTTGCGGCTTTAATCTGCTCCACTGTAATGCCAAAGA
66 CTACAACGCCAGAGAAGTAAGATTCACCGTTGCGGCTTTAATCTGCTCCACTGTAATGCCAAAGA
* * * *
14579419 GATAAGATTTGCTGCCCACAGCTTTAATCCGCTCTACTTCAGCTAATCCAAGCCTTAACGCCAGG
131 GATAGGATTCGCTGCCCACAGCTTTAATCCGCTCCACTTCAGCTAATCCAAGCCTTAACGCCAAG
* * *
14579484 GAGATAAGATTCGCCGTCGTGGCTTCAATTTGCTCTGCTACAACGCCAGGGAAATAAGATTCACC
196 GAGATAAGATTCGCCGTCGTGGCTTCAATCTGCTCTGCTACAACGCCAGGGAAATAATATTCGCC
14579549 GTTGCGG
261 GTTGCGG
* *
14579556 CTTCAATCTTTTAAATTACAATGTTGGGGAAACGAGATTCGCCGCCGTAGCTTCAATCTGTTCCA
1 CTTCAATCTTTTAAATTGCAATGTTGGGGAAACGAGATTCGCCGTCGTAGCTTCAATCTGTTCCA
* * *
14579621 CTACATCGCCAGGGAAGTAAGATTCACCATTGCGGCTTTAATCTGCTCCACTGTAATGCCAAAGA
66 CTACAACGCCAGAGAAGTAAGATTCACCGTTGCGGCTTTAATCTGCTCCACTGTAATGCCAAAGA
* *
14579686 GATAGGATTCACTACCCACAGCTTTAATCCGCTCCACTTCAGCTAATCCAAGCCTTAACGCC-AG
131 GATAGGATTCGCTGCCCACAGCTTTAATCCGCTCCACTTCAGCTAATCCAAGCCTTAACGCCAAG
* * *
14579750 GTATATTAGATTCGCCGTCGTGGCTTCAATCTGCTCCGCTACAACGCCAGGGAAATAATATTCGC
196 G-AGATAAGATTCGCCGTCGTGGCTTCAATCTGCTCTGCTACAACGCCAGGGAAATAATATTCGC
*
14579815 CGTTGTGG
260 CGTTGCGG
14579823 CTTCAATCTTTT
1 CTTCAATCTTTT
14579835 TCTTTGCAAC
Statistics
Matches: 495, Mismatches: 50, Indels: 2
0.90 0.09 0.00
Matches are distributed among these distances:
266 2 0.00
267 493 1.00
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.28
Consensus pattern (267 bp):
CTTCAATCTTTTAAATTGCAATGTTGGGGAAACGAGATTCGCCGTCGTAGCTTCAATCTGTTCCA
CTACAACGCCAGAGAAGTAAGATTCACCGTTGCGGCTTTAATCTGCTCCACTGTAATGCCAAAGA
GATAGGATTCGCTGCCCACAGCTTTAATCCGCTCCACTTCAGCTAATCCAAGCCTTAACGCCAAG
GAGATAAGATTCGCCGTCGTGGCTTCAATCTGCTCTGCTACAACGCCAGGGAAATAATATTCGCC
GTTGCGG
Found at i:14579576 original size:50 final size:50
Alignment explanation
Indices: 14579475--14579665 Score: 130
Period size: 50 Copynumber: 3.8 Consensus size: 50
14579465 TCCAAGCCTT
* * * * * * ***
14579475 AACGCCAGGGAGATAAGATTCGCCGTCGTGGCTTCAATTTGCTCTGCTAC
1 AACGCCAGGGAAATAAGATTCACCGTTGCGGCTTCAATCTGTTAAACTAC
* *
14579525 AACGCCAGGGAAATAAGATTCACCGTTGCGGCTTCAATCTTTTAAATTAC
1 AACGCCAGGGAAATAAGATTCACCGTTGCGGCTTCAATCTGTTAAACTAC
* *** ** * ** ** **
14579575 AATGTTGGGGAAACGAGATTCGCCGCCGTAGCTTCAATCTGTTCCACTAC
1 AACGCCAGGGAAATAAGATTCACCGTTGCGGCTTCAATCTGTTAAACTAC
* * * *
14579625 ATCGCCAGGGAAGTAAGATTCACCATTGCGGCTTTAATCTG
1 AACGCCAGGGAAATAAGATTCACCGTTGCGGCTTCAATCTG
14579666 CTCCACTGTA
Statistics
Matches: 100, Mismatches: 41, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
50 100 1.00
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.27
Consensus pattern (50 bp):
AACGCCAGGGAAATAAGATTCACCGTTGCGGCTTCAATCTGTTAAACTAC
Found at i:14580051 original size:44 final size:44
Alignment explanation
Indices: 14580001--14580166 Score: 244
Period size: 44 Copynumber: 3.8 Consensus size: 44
14579991 ATCTGCTATT
* *
14580001 TTCAACCTACTCTACTGCTG-CTCAGGGAGATAGGATTCACAATC
1 TTCAACCTATTCCACTGCTGAC-CAGGGAGATAGGATTCACAATC
** *
14580045 TTCAACCTATTCCACTGCTGACCAATGAGATACGATTCACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
*
14580089 TTCAACCTATTCCATTGCTGACCAGGGAGATAGGATTCACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
* *
14580133 TTCAATCTATTCCACTGTTGACCAGGGAGATAGG
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGG
14580167 GTTTTTTGAT
Statistics
Matches: 109, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
44 108 0.99
45 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (44 bp):
TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
Found at i:14581076 original size:25 final size:26
Alignment explanation
Indices: 14581037--14581085 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
14581027 AGTGTCTTGA
14581037 AAAGAAAAAAATA-TTCAAGAACAGC
1 AAAGAAAAAAATATTTCAAGAACAGC
* *
14581062 AAAGAATAAAGTATTTCAAGAACA
1 AAAGAAAAAAATATTTCAAGAACA
14581086 AACAAATTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 11 0.52
26 10 0.48
ACGTcount: A:0.61, C:0.10, G:0.12, T:0.16
Consensus pattern (26 bp):
AAAGAAAAAAATATTTCAAGAACAGC
Found at i:14581399 original size:16 final size:17
Alignment explanation
Indices: 14581378--14581415 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
14581368 TCCATTTTAC
14581378 TTTTTC-CATTT-TTATT
1 TTTTTCACATTTGTT-TT
14581394 TTTTTCACATTTGTTTT
1 TTTTTCACATTTGTTTT
14581411 TTTTT
1 TTTTT
14581416 TGTGAAACTC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 6 0.30
17 12 0.60
18 2 0.10
ACGTcount: A:0.11, C:0.11, G:0.03, T:0.76
Consensus pattern (17 bp):
TTTTTCACATTTGTTTT
Found at i:14586547 original size:29 final size:26
Alignment explanation
Indices: 14586486--14586548 Score: 72
Period size: 29 Copynumber: 2.3 Consensus size: 26
14586476 TATACATGTA
*
14586486 AAATATATTAAAAATAATTAAATAAT
1 AAATATATTAAAAATAATTAAAAAAT
**
14586512 ATCTATATTATCAAAATTAATTAAAAAAT
1 AAATATATTA--AAAA-TAATTAAAAAAT
14586541 AAATATAT
1 AAATATAT
14586549 GTATATATAT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
26 8 0.28
28 4 0.14
29 17 0.59
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (26 bp):
AAATATATTAAAAATAATTAAAAAAT
Found at i:14586621 original size:21 final size:22
Alignment explanation
Indices: 14586581--14586623 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
14586571 AACATTAGTT
14586581 GAAAAAAATAAATATGTACATAA
1 GAAAAAAATAAATA-GTACATAA
*
14586604 GAAAACAATAAATA-TACATA
1 GAAAAAAATAAATAGTACATA
14586624 TATATTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
23 13 0.68
ACGTcount: A:0.65, C:0.07, G:0.07, T:0.21
Consensus pattern (22 bp):
GAAAAAAATAAATAGTACATAA
Found at i:14599037 original size:28 final size:31
Alignment explanation
Indices: 14598988--14599046 Score: 79
Period size: 28 Copynumber: 2.0 Consensus size: 31
14598978 TATATAGTTT
14598988 TTTATATTATTTATAAAGGTTATAATAATAA
1 TTTATATTATTTATAAAGGTTATAATAATAA
* *
14599019 TTTATA-TA-TTAT-AATGTTATTATAATAA
1 TTTATATTATTTATAAAGGTTATAATAATAA
14599047 AAACAAAACA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 14 0.54
29 4 0.15
30 2 0.08
31 6 0.23
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (31 bp):
TTTATATTATTTATAAAGGTTATAATAATAA
Found at i:14600797 original size:41 final size:41
Alignment explanation
Indices: 14600752--14600850 Score: 146
Period size: 41 Copynumber: 2.4 Consensus size: 41
14600742 GACTTTACGT
14600752 CTAGCAGGCTAAGTGCCGATGAACTGAATCAGGCTATAAGC
1 CTAGCAGGCTAAGTGCCGATGAACTGAATCAGGCTATAAGC
* * * *
14600793 CTAGCGGGCTAAGTACCGGTGAACTGAATCAGGTTATAAGC
1 CTAGCAGGCTAAGTGCCGATGAACTGAATCAGGCTATAAGC
14600834 CTAGCAGG-TGAAGTGCC
1 CTAGCAGGCT-AAGTGCC
14600851 AGTGAATCTG
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
40 1 0.02
41 50 0.98
ACGTcount: A:0.29, C:0.21, G:0.29, T:0.20
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGATGAACTGAATCAGGCTATAAGC
Found at i:14602931 original size:25 final size:25
Alignment explanation
Indices: 14602900--14602956 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 25
14602890 CTTCCTGAAT
** *
14602900 ATGGCTCTTATAAGCTTCCCTTTAC
1 ATGGCTCACATAAGCTTCCCGTTAC
* *
14602925 ATGGCTCACATGAGCTTCCCGTTAT
1 ATGGCTCACATAAGCTTCCCGTTAC
14602950 ATGGCTC
1 ATGGCTC
14602957 GAGAGAGTGT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (25 bp):
ATGGCTCACATAAGCTTCCCGTTAC
Found at i:14604476 original size:14 final size:15
Alignment explanation
Indices: 14604457--14604486 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
14604447 GGGTGTTATA
14604457 TTTCCTTC-TTTAAT
1 TTTCCTTCTTTTAAT
14604471 TTTCCTTCTTTTAAT
1 TTTCCTTCTTTTAAT
14604486 T
1 T
14604487 CCTTATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.13, C:0.20, G:0.00, T:0.67
Consensus pattern (15 bp):
TTTCCTTCTTTTAAT
Found at i:14607108 original size:16 final size:16
Alignment explanation
Indices: 14607084--14607114 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
14607074 TTATAGTATA
14607084 TTAACAATTTTTTATG
1 TTAACAATTTTTTATG
*
14607100 TTAATAATTTTTTAT
1 TTAACAATTTTTTAT
14607115 AATTTATATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.61
Consensus pattern (16 bp):
TTAACAATTTTTTATG
Found at i:14607143 original size:15 final size:17
Alignment explanation
Indices: 14607110--14607143 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
14607100 TTAATAATTT
14607110 TTTATAATTTATATATA
1 TTTATAATTTATATATA
14607127 TTTA-AATTTAT-TATA
1 TTTATAATTTATATATA
14607142 TT
1 TT
14607144 ATTATAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.35
16 7 0.41
17 4 0.24
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TTTATAATTTATATATA
Found at i:14607151 original size:44 final size:45
Alignment explanation
Indices: 14607073--14607160 Score: 101
Period size: 42 Copynumber: 2.0 Consensus size: 45
14607063 TTTTCATATT
* *
14607073 TTTATAGTATATTAACAATTTTTTATGTTAATAAT-TTTTTATAA
1 TTTATAGTATATTAACAATTTATTATATTAATAATATTTTTATAA
*
14607117 TTTATA-TATATTTA-AATTTATTATATTATTATAATAATTTTTAT
1 TTTATAGTATATTAACAATTTATTATATTA--ATAAT-ATTTTTAT
14607161 TTTAAATAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
42 12 0.32
43 7 0.19
44 11 0.30
46 7 0.19
ACGTcount: A:0.38, C:0.01, G:0.02, T:0.59
Consensus pattern (45 bp):
TTTATAGTATATTAACAATTTATTATATTAATAATATTTTTATAA
Done.